Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007263.1 Corchorus capsularis cultivar CVL-1 contig07284, 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: 9788
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32


Found at i:3210 original size:32 final size:32

Alignment explanation


    Indices: 3141--3203  Score: 126
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       3131 GGGTATACCT

                                            
       3141 TTATATAGCGGCGTCTAAAGAACAAAACGCCC
          1 TTATATAGCGGCGTCTAAAGAACAAAACGCCC

                                           
       3173 TTATATAGCGGCGTCTAAAGAACAAAACGCC
          1 TTATATAGCGGCGTCTAAAGAACAAAACGCC

       3204 GCTATATTTA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  32   31  1.00

ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19


Consensus pattern (32 bp):   
TTATATAGCGGCGTCTAAAGAACAAAACGCCC

Found at i:3282 original size:24 final size:24

Alignment explanation


    Indices: 3250--3301  Score: 77
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       3240 TAAATTGCAT

                                    
       3250 ATAGCGGCGTCCAGACGCCCCCAA
          1 ATAGCGGCGTCCAGACGCCCCCAA

                *      *       *    
       3274 ATAGTGGCGTCTAGACGCCGCCAA
          1 ATAGCGGCGTCCAGACGCCCCCAA

                
       3298 ATAG
          1 ATAG

       3302 AGGCATCTAG


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  24   25  1.00

ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13


Consensus pattern (24 bp):   
ATAGCGGCGTCCAGACGCCCCCAA

Found at i:3310 original size:24 final size:24

Alignment explanation


    Indices: 3262--3318  Score: 78
    Period size: 24  Copynumber: 2.4  Consensus size: 24

       3252 AGCGGCGTCC

                   *        *   *   
       3262 AGACGCCCCCAAATAGTGGCGTCT
          1 AGACGCCGCCAAATAGAGGCATCT

                                    
       3286 AGACGCCGCCAAATAGAGGCATCT
          1 AGACGCCGCCAAATAGAGGCATCT

               *     
       3310 AGATGCCGC
          1 AGACGCCGC

       3319 AATATGCTAT


Statistics
Matches: 29,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  24   29  1.00

ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14


Consensus pattern (24 bp):   
AGACGCCGCCAAATAGAGGCATCT
Done.