Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013269.1 Corchorus olitorius cultivar O-4 contig13302, 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: 4495
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33


Found at i:3633 original size:226 final size:223

Alignment explanation


    Indices: 3201--3647  Score: 689
    Period size: 226  Copynumber: 2.0  Consensus size: 223

       3191 ATGCGCGTAT

                                                      *                     *
       3201 TCTACATATTATTTTTGTAACTAGGTAAAATTACTAAATACTTATTCTAACTTTTAACCTGGGAT
          1 TCTACATATTATTTTTGTAACTAGGTAAAATTACTAAATACTCATTCTAACTTTTAACCTGGGAC

                          *                                        *         
       3266 GACCTAATCGCCCCGTTTTAGTCATTTCTCACATGCGGTTACACTGAACCGATTCGTATTCCATC
         66 GACCTAATCGCCCCATTTTAGTCATTTCTCACATGCGGTTACACTGAACCGATTCATATTCCATC

                                                                             
       3331 ACTCTATAACCTCATAAAATCATATTTATTATATTTAAACCCACAGAAAACACGTTCACATTTAC
        131 ACTCTATAACCTCATAAAATCATATTTATTATATTTAAACCCACAGAAAACACGTTCACATTTAC

                                           
       3396 AGAGGAAAAAAAACAATCTATAAAAATTGAC
        196 AGA-G-AAAAAAA-AATCTATAAAAATTGAC

                               *      *  *         *   *                   * 
       3427 TCTACATATTATTTTTGTAGCTAGGTGAATTTACTAAATGCTCGTTCTAACTTTTAACCTGGGGC
          1 TCTACATATTATTTTTGTAACTAGGTAAAATTACTAAATACTCATTCTAACTTTTAACCTGGGAC

                 *                                   *      **               
       3492 GACCTTATCGCCCCATTTTAGTCATTTCTCACATGCGGTTAGACTGAATTGATTCATATTCCATC
         66 GACCTAATCGCCCCATTTTAGTCATTTCTCACATGCGGTTACACTGAACCGATTCATATTCCATC

                     *                              *  *      **             
       3557 ACTCTATAATCTCAT-AAATCATATTTATTATATTTAAACTCATAGAAAATGCGTTCACATTTAC
        131 ACTCTATAACCTCATAAAATCATATTTATTATATTTAAACCCACAGAAAACACGTTCACATTTAC

                                       
       3621 AGAGAAAAAAAAATCTATAAAAATTGA
        196 AGAGAAAAAAAAATCTATAAAAATTGA

       3648 ATTATATGAT


Statistics
Matches: 202,  Mismatches: 19, Indels: 4
        0.90            0.08        0.02

Matches are distributed among these distances:
 222   16  0.08
 223    7  0.03
 224    1  0.00
 225   48  0.24
 226  130  0.64

ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35


Consensus pattern (223 bp):   
TCTACATATTATTTTTGTAACTAGGTAAAATTACTAAATACTCATTCTAACTTTTAACCTGGGAC
GACCTAATCGCCCCATTTTAGTCATTTCTCACATGCGGTTACACTGAACCGATTCATATTCCATC
ACTCTATAACCTCATAAAATCATATTTATTATATTTAAACCCACAGAAAACACGTTCACATTTAC
AGAGAAAAAAAAATCTATAAAAATTGAC
Done.