Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014738.1 Corchorus olitorius cultivar O-4 contig14771, 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: 17076
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:1074 original size:2 final size:2

Alignment explanation


    Indices: 1067--1153  Score: 79
    Period size: 2  Copynumber: 43.0  Consensus size: 2

       1057 TTACTAGTAG

                                     *       *  *               *          
       1067 TA TA TA TA TA TA TA -A TC T- TA AA AA TCA TA TA TA CA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA

                                  *           *                             
       1108 GTA TA TA TA TA TA TA CA TA TA TA CA TA TA TA GTA TA TA TA TA TA
          1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA

              
       1152 TA
          1 TA

       1154 ATCTTAAAAA


Statistics
Matches: 71,  Mismatches: 9, Indels: 10
        0.79            0.10        0.11

Matches are distributed among these distances:
   1    2  0.03
   2   63  0.89
   3    6  0.08

ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43


Consensus pattern (2 bp):   
TA

Found at i:1127 original size:31 final size:31

Alignment explanation


    Indices: 1092--1153  Score: 124
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       1082 TCTTAAAAAT

                                           
       1092 CATATATACATATATAGTATATATATATATA
          1 CATATATACATATATAGTATATATATATATA

                                           
       1123 CATATATACATATATAGTATATATATATATA
          1 CATATATACATATATAGTATATATATATATA

       1154 ATCTTAAAAA


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

Matches are distributed among these distances:
  31   31  1.00

ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42


Consensus pattern (31 bp):   
CATATATACATATATAGTATATATATATATA

Found at i:16293 original size:59 final size:59

Alignment explanation


    Indices: 16227--16345  Score: 229
    Period size: 59  Copynumber: 2.0  Consensus size: 59

      16217 TTGATTTGTT

                                                   *                   
      16227 ATCTAACAGTTAAAATTCTGATCCCAAAATTTCAATAATTAAACGGTGGCTTAAAATCA
          1 ATCTAACAGTTAAAATTCTGATCCCAAAATTTCAATAATCAAACGGTGGCTTAAAATCA

                                                                       
      16286 ATCTAACAGTTAAAATTCTGATCCCAAAATTTCAATAATCAAACGGTGGCTTAAAATCA
          1 ATCTAACAGTTAAAATTCTGATCCCAAAATTTCAATAATCAAACGGTGGCTTAAAATCA

             
      16345 A
          1 A

      16346 AATTAAATCG


Statistics
Matches: 59,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  59   59  1.00

ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29


Consensus pattern (59 bp):   
ATCTAACAGTTAAAATTCTGATCCCAAAATTTCAATAATCAAACGGTGGCTTAAAATCA
Done.