Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004886.1 Corchorus olitorius cultivar O-4 contig04904, 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, 742

Length: 1237
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36


Found at i:423 original size:17 final size:14

Alignment explanation


    Indices: 382--424  Score: 77
    Period size: 14  Copynumber: 3.1  Consensus size: 14

        372 ATATGGAAAG

                          
        382 TTCAAAAATCATCA
          1 TTCAAAAATCATCA

                          
        396 TTCAAAAATCATCA
          1 TTCAAAAATCATCA

                     *    
        410 TTCAAAAATTATCA
          1 TTCAAAAATCATCA

             
        424 T
          1 T

        425 ATATCATATA


Statistics
Matches: 28,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  14   28  1.00

ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33


Consensus pattern (14 bp):   
TTCAAAAATCATCA

Found at i:488 original size:19 final size:19

Alignment explanation


    Indices: 460--499  Score: 62
    Period size: 19  Copynumber: 2.1  Consensus size: 19

        450 ATAATCCAGA

                 *      *      
        460 AATTATAAATTTCTAAAAT
          1 AATTAGAAATTTATAAAAT

                               
        479 AATTAGAAATTTATAAAAT
          1 AATTAGAAATTTATAAAAT

              
        498 AA
          1 AA

        500 AGTAAAAGCG


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38


Consensus pattern (19 bp):   
AATTAGAAATTTATAAAAT

Found at i:1172 original size:21 final size:21

Alignment explanation


    Indices: 1146--1230  Score: 170
    Period size: 21  Copynumber: 4.0  Consensus size: 21

       1136 AATATACTTA

                                 
       1146 TTCGATCTAATAAGTATCTTG
          1 TTCGATCTAATAAGTATCTTG

                                 
       1167 TTCGATCTAATAAGTATCTTG
          1 TTCGATCTAATAAGTATCTTG

                                 
       1188 TTCGATCTAATAAGTATCTTG
          1 TTCGATCTAATAAGTATCTTG

                                 
       1209 TTCGATCTAATAAGTATCTTG
          1 TTCGATCTAATAAGTATCTTG

             
       1230 T
          1 T

       1231 ATCAGAA


Statistics
Matches: 64,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   64  1.00

ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44


Consensus pattern (21 bp):   
TTCGATCTAATAAGTATCTTG

Done.