Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008956.1 Corchorus olitorius cultivar O-4 contig08983, 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, 809

Length: 1349
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22


Found at i:410 original size:154 final size:154

Alignment explanation


    Indices: 1--1346  Score: 2100
    Period size: 154  Copynumber: 8.7  Consensus size: 154

                                  *         *                                
          1 TAAACAATGGAAAAGAAAAGACCTTGAGGTTTACCAAATCGAAGACGATTCAAAATGTACACTAA
          1 TAAACAATGG-AAAGAAAAG-CATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGT-CACTAA

                                                                             
         66 TGGGCCCCGATAGGCCCAAAATAACAAGTAGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAA
         63 TGGGCCCCGATAGGCCCAAAATAACAAGT-GTTCCAAATGAGCTAAGAACTTCACAGTGGACTAA

                      *             *   
        131 TCTCACCAAATTGATTATAGTTAGGCCA
        127 TCTCACCAAAATGATTATAGTTAGTCCA

                *                                                            
        159 TAAAAAATGGAAAGAAAAGCAATTGAGGTTTTGCCAAATCGAAGACGATTCAAAATGTCACTAAT
          1 TAAACAATGGAAAGAAAAGC-ATTGAGG-TTTGCCAAATCGAAGACGATTCAAAATGTCACTAAT

                 *                                      *                   *
        224 GGGCCGCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATT
         64 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATC

                *                     
        289 TCACGAAAATGATTATAGTTAGTCCA
        129 TCACCAAAATGATTATAGTTAGTCCA

                              *    *                                   *     
        315 TAAACAATGGAAAGAAAAACATTAAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACAAATGG
          1 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG

               *                                                             
        380 GCCGCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC
         66 GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC

                                    
        445 ACCAAAATGATTATAGTTAGTCCA
        131 ACCAAAATGATTATAGTTAGTCCA

              * ***                                              **** *      
        469 TATATTGTGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACAAAATTAATGG
          1 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG

                                  *                 *  *           *         
        534 GCCCCGATA-GCCCTAAAATAATAAGTGTTCCAAATGAGCGAAAAACTTCACAGTTGACTAATCT
         66 GCCCCGATAGGCCC-AAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCT

                                     
        598 CACCAAAATGATTATAGTTAGTCCA
        130 CACCAAAATGATTATAGTTAGTCCA

            *                      * *                           * **        
        623 CAAACAATGGAAAGAAAAGCATTAAAGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGG
          1 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG

                        *                                                 *  
        688 GCCCCGATAGGCACAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATTTC
         66 GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC

              *                     
        753 ACAAAAATGATTATAGTTAGTCCA
        131 ACCAAAATGATTATAGTTAGTCCA

                              *    *                                         
        777 TAAACAATGGAAAGAAAAACATTAAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG
          1 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG

                                                                             
        842 GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC
         66 GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC

               *   *             *   
        907 ACTTAAATTGATTATAGTTAGGCCA
        131 AC-CAAAATGATTATAGTTAGTCCA

                                *         *                                  
        932 TAAACAATGGAAAGAAAAGCCTTGAGGTTTACCAAATCGAAGACGATTCAAAATGTCACTAATGG
          1 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG

                      *              *                                       
        997 GCCCCGATAGACCCAAAATAACAAGGGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC
         66 GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC

                                    
       1062 ACCAAAATGATTATAGTTAGTCCA
        131 ACCAAAATGATTATAGTTAGTCCA

                                *           *                    * *         
       1086 TAAACAATGGAAAGAAAAGCCTTGAGGTTTGCAAAATCGAAGACGATTCAAAACGACACTAATGG
          1 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG

               *                                      *                    * 
       1151 GCCGCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCAC
         66 GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC

                         *          
       1216 ACCAAAATGATTACAGTTAGTCCA
        131 ACCAAAATGATTATAGTTAGTCCA

                                                                 * **        
       1240 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGG
          1 TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG

                               *      *               
       1305 GCCCCGATAGGCCCAAAATCACAAGTATTCCAAATGAGCTAA
         66 GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA

       1347 AAA


Statistics
Matches: 1096,  Mismatches: 87, Indels: 14
        0.92            0.07        0.01

Matches are distributed among these distances:
 153    4  0.00
 154  775  0.71
 155  154  0.14
 156   77  0.07
 157   49  0.04
 158   37  0.03

ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22


Consensus pattern (154 bp):   
TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGG
GCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTC
ACCAAAATGATTATAGTTAGTCCA

Done.