Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018309.1 Corchorus olitorius cultivar O-4 contig18342, 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: 6317
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31


Found at i:2649 original size:68 final size:69

Alignment explanation


    Indices: 2532--2662  Score: 192
    Period size: 68  Copynumber: 1.9  Consensus size: 69

       2522 ATTTTTTTCC

                                               *      *          *           
       2532 TAAAGGTTGCTCTCAAACACTAAATTCTTATAGATTTGTATCCTACTTTTCTTGACAATGCAAAA
          1 TAAAGGTTGCTCTCAAACAC---ATTCTTATAGATGTGTATCATACTTTTCTTAACAATGCAAAA

                   
       2597 TCTTTTG
         63 TCTTTTG

                                                     *                  
       2604 TAAAGGTTGCTCTCAAACAC-TTCTTATAGATGTGTATCATTCTTTTCTTAACAATGCAA
          1 TAAAGGTTGCTCTCAAACACATTCTTATAGATGTGTATCATACTTTTCTTAACAATGCAA

       2663 TTTTAGTTCC


Statistics
Matches: 55,  Mismatches: 4, Indels: 4
        0.87            0.06        0.06

Matches are distributed among these distances:
  68   35  0.64
  72   20  0.36

ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40


Consensus pattern (69 bp):   
TAAAGGTTGCTCTCAAACACATTCTTATAGATGTGTATCATACTTTTCTTAACAATGCAAAATCT
TTTG

Found at i:3292 original size:74 final size:75

Alignment explanation


    Indices: 3163--3308  Score: 181
    Period size: 74  Copynumber: 2.0  Consensus size: 75

       3153 AATACCCTAT

                                            ****     *                 *     
       3163 ATTAATTCCATTTAATGAAAAACATATATGTATTCTATAACGTATAATGATTT-AAATAGAATTT
          1 ATTAATTCCATTTAATGAAAAACATATATGTACAAAATAACATATAATGATTTAAAATAAAATTT

                      
       3227 ATAGAATTAG
         66 ATAGAATTAG

                                       *                                     
       3237 ATTAATTCCATTTAATGAAAAACATATGT-TACAAAATCAAACATATAATGA-TTAAAATAAAAT
          1 ATTAATTCCATTTAATGAAAAACATATATGTACAAAAT--AACATATAATGATTTAAAATAAAAT

              *      
       3300 TTTTAGAAT
         64 TTATAGAAT

       3309 GAAACTGTCT


Statistics
Matches: 61,  Mismatches: 8, Indels: 5
        0.82            0.11        0.07

Matches are distributed among these distances:
  73    4  0.07
  74   30  0.49
  75   27  0.44

ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37


Consensus pattern (75 bp):   
ATTAATTCCATTTAATGAAAAACATATATGTACAAAATAACATATAATGATTTAAAATAAAATTT
ATAGAATTAG
Done.