Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023970.1 Corchorus olitorius cultivar O-4 contig24003, 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: 20536
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33


Found at i:3201 original size:83 final size:84

Alignment explanation


    Indices: 3033--3227  Score: 250
    Period size: 83  Copynumber: 2.3  Consensus size: 84

       3023 GTCTATGTCA

                 *            *       * **   *    *        *              *  
       3033 CATTAGAATTAGCTTAAGCTACCTAAGTTTATATATAATATGTGTGATATGAAATTTAAACCCTA
          1 CATTAAAATTAGCTTAAGATACCTAAATCCATACATAAAATGTGTGACATGAAATTTAAACCATA

            *                  
       3098 GGTGAGAAAAATTGAATAC
         66 AGTGAGAAAAATTGAATAC

                                            *                                
       3117 CATTAAAATTAGCTTAAGATACCTAAATCCATGCATAAAATG-GTGACATGAAATTTAAACCATA
          1 CATTAAAATTAGCTTAAGATACCTAAATCCATACATAAAATGTGTGACATGAAATTTAAACCATA

                                
       3181 AGTGAGAGAAAA-TGAATAC
         66 AGTGAGA-AAAATTGAATAC

                              *  *      
       3200 CATTAAAATTAGCTTAAGGTATCTAAAT
          1 CATTAAAATTAGCTTAAGATACCTAAAT

       3228 ATATATACAA


Statistics
Matches: 97,  Mismatches: 13, Indels: 3
        0.86            0.12        0.03

Matches are distributed among these distances:
  83   59  0.61
  84   38  0.39

ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30


Consensus pattern (84 bp):   
CATTAAAATTAGCTTAAGATACCTAAATCCATACATAAAATGTGTGACATGAAATTTAAACCATA
AGTGAGAAAAATTGAATAC

Found at i:5314 original size:17 final size:16

Alignment explanation


    Indices: 5292--5329  Score: 67
    Period size: 17  Copynumber: 2.3  Consensus size: 16

       5282 TCTAGTTAGA

                             
       5292 AAAAAAATTAATATAAG
          1 AAAAAAATTAA-ATAAG

                            
       5309 AAAAAAATTAAATAAG
          1 AAAAAAATTAAATAAG

                 
       5325 AAAAA
          1 AAAAA

       5330 CAAAAAATGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  16   10  0.48
  17   11  0.52

ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18


Consensus pattern (16 bp):   
AAAAAAATTAAATAAG

Found at i:7778 original size:2 final size:2

Alignment explanation


    Indices: 7771--7802  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       7761 CGGAATACCC

                                                           
       7771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       7803 GCGCTTTATT


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.