Specifications ============== Sequence source file: "HVGI.100404" Definement of microsatellites (unit size / minimum number of repeats): (1/100) (2/6) (3/5) (4/5) (5/5) (6/5) Maximal number of bases interrupting 2 SSRs in a compound microsatellite: 100 RESULTS OF MICROSATELLITE SEARCH ================================ Total number of sequences examined: 50453 Total size of examined sequences (bp): 36054692 Total number of identified SSRs: 5109 Number of SSR containing sequences: 4395 Number of sequences containing more than 1 SSR: 596 Number of SSRs present in compound formation: 380 Distribution to different repeat type classes --------------------------------------------- Unit size Number of SSRs 1 11 2 1419 3 3297 4 273 5 59 6 50 Frequency of identified SSR motifs ---------------------------------- Repeats 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 total A - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 1 2 1 1 1 1 7 G - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 1 1 1 3 T - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 1 1 AC - 32 13 4 6 5 4 2 1 1 1 1 1 1 1 73 AG - 64 39 24 30 17 12 5 4 3 4 1 4 4 4 1 4 1 2 1 1 1 1 2 1 2 1 1 1 2 2 1 1 1 1 1 1 245 AT - 31 21 16 6 4 4 2 3 2 2 1 1 1 3 1 2 1 101 CA - 24 19 11 6 3 1 1 2 1 1 1 1 71 CG - 35 5 5 1 46 CT - 52 44 26 15 9 8 2 6 1 3 3 2 1 2 4 3 1 2 1 2 2 1 1 1 1 1 1 1 196 GA - 54 31 27 9 13 4 2 1 4 2 2 2 1 1 3 1 2 2 1 3 1 1 2 2 2 2 3 1 2 1 1 1 1 1 1 1 2 1 1 192 GC - 33 5 3 9 50 GT - 43 19 16 8 7 2 1 1 2 1 100 TA - 32 15 16 4 4 6 1 1 3 1 1 1 1 1 1 88 TC - 55 37 12 7 4 5 3 2 3 4 4 1 1 2 3 1 1 1 1 1 148 TG - 35 23 16 12 9 3 2 3 3 1 1 1 109 AAC 9 2 11 AAG 44 13 12 5 1 1 1 1 78 AAT 7 2 2 1 12 ACA 3 2 2 1 1 1 10 ACC 13 9 3 25 ACG 10 2 1 13 ACT 2 2 AGA 15 8 2 1 1 1 1 29 AGC 61 29 11 6 4 111 AGG 45 15 7 2 69 AGT 6 1 7 ATA 7 2 9 ATC 16 1 2 1 1 1 22 ATG 14 5 1 2 1 23 CAA 14 12 2 2 1 1 32 CAC 42 15 4 4 2 67 CAG 82 24 18 9 14 1 148 CAT 6 6 3 15 CCA 31 13 9 3 2 58 CCG 147 39 44 14 12 1 1 258 CCT 69 18 9 3 99 CGA 38 17 6 61 CGC 128 57 39 8 3 1 236 CGG 114 49 15 12 190 CGT 18 4 1 23 CTA 5 3 1 9 CTC 48 18 5 2 2 75 CTG 21 10 3 2 1 37 CTT 23 12 5 5 3 1 1 50 GAA 24 16 1 3 2 3 1 1 51 GAC 37 11 5 1 54 GAG 65 37 11 3 2 118 GAT 31 8 2 1 1 1 44 GCA 72 27 19 8 2 2 130 GCC 118 52 25 17 3 215 GCG 103 39 10 8 3 163 GCT 34 11 7 1 1 54 GGA 60 16 7 1 84 GGC 128 48 21 14 3 2 1 217 GGT 8 6 14 GTA 3 1 4 GTC 21 4 1 26 GTG 6 3 4 1 1 15 GTT 4 2 1 7 TAA 1 1 TAC 7 2 1 1 11 TAG 1 1 1 3 TAT 4 4 1 9 TCA 12 3 1 16 TCC 46 22 6 74 TCG 14 9 5 2 30 TCT 14 1 4 1 1 21 TGA 9 5 5 2 21 TGC 30 13 4 2 1 50 TGG 16 3 1 3 23 TGT 4 1 2 1 8 TTA 1 1 1 3 TTC 21 6 5 3 1 1 37 TTG 9 3 3 15 AAAC 2 2 AAAG 1 1 AACC 3 3 AAGA 1 1 AAGC 2 2 AAGG 2 2 AATA 1 1 AATC 1 1 ACAG 2 2 ACAT 1 1 ACCT 1 1 ACGA 1 1 ACGC 2 2 ACGT 1 1 ACTG 1 1 AGAC 1 1 2 AGCA 1 1 AGCC 1 1 2 AGGC 3 1 4 AGGG 1 1 AGTG 2 2 ATAC 1 1 2 ATCA 1 1 ATCC 4 4 ATCT 1 1 ATGA 1 1 2 ATGC 4 4 ATGT 2 1 1 4 CAAA 1 1 CAAC 2 2 CAAG 1 1 2 CACG 2 1 3 CACT 1 1 CAGC 1 1 CAGT 1 1 CATC 1 2 3 CATG 4 1 5 CATT 3 3 CCAA 2 1 3 CCAC 1 1 2 CCAG 1 1 CCAT 7 1 8 CCCG 3 3 CCCT 2 2 CCGA 1 1 CCGC 5 5 CCGT 1 1 CCTC 6 2 8 CCTG 1 1 CCTT 1 1 CGAC 2 2 CGAG 4 4 CGCA 3 1 4 CGCC 2 1 3 CGCT 6 6 CGTG 2 2 CGTT 2 2 CTAG 1 1 CTAT 1 1 CTCA 1 1 CTCC 5 5 CTCG 2 2 CTGC 2 2 CTGT 1 1 CTTA 1 1 CTTC 2 1 3 CTTG 1 1 GAAA 1 1 GAAG 1 1 GAAT 1 1 GATC 3 3 GATG 1 1 1 3 GCAA 2 2 GCAG 1 1 2 GCAT 7 2 9 GCCA 1 1 2 GCCT 1 1 GCGA 1 1 GCGG 3 3 GCGT 4 4 GCTC 3 3 GCTT 1 1 GGAA 4 1 5 GGAT 1 1 2 GGCG 3 3 GGGA 1 1 GTAC 1 1 GTAT 3 3 GTCC 1 1 GTCT 2 2 GTGC 1 1 GTTG 1 1 GTTT 2 2 TACA 1 1 1 3 TACG 1 1 TAGA 1 1 TAGG 1 1 TATC 2 2 TATG 1 1 1 1 4 TCAG 2 2 TCCA 1 2 1 4 TCCC 1 1 TCCG 2 2 TCCT 4 4 TCGC 4 4 TCGT 1 1 TCTT 1 1 2 TGCA 3 1 4 TGCC 2 2 TGCG 1 1 TGCT 3 3 TGGA 1 1 2 TGGC 1 1 TGGT 4 1 5 TGTA 1 1 1 3 TGTT 4 4 TTCA 2 2 TTCT 1 1 TTGA 1 1 TTGG 1 1 TTTC 1 1 AAGGG 2 2 AAGTG 1 1 ACCCA 1 1 ACTCT 1 1 AGAAG 1 1 AGATC 2 2 AGGAG 2 2 CAAGA 1 1 CACCA 1 1 CCAAC 1 1 CCACC 2 1 3 CCACT 1 1 CCAGT 1 1 CCCAC 1 1 CCCCT 1 1 2 CCGCC 1 1 CCGTC 2 2 CCTCC 2 2 4 CCTCT 1 1 CTCAT 1 1 CTCCC 1 1 CTCCT 1 1 CTCTC 3 1 4 CTGTG 1 1 GAAGA 1 1 GAGAA 1 1 GAGAG 2 2 GAGCA 1 1 GAGCT 2 2 GCCAT 1 1 GCGAG 1 1 GGAGA 1 1 GGGCA 1 1 GGGCC 1 1 GGTGC 1 1 TACTC 1 1 TCATA 1 1 TCCCT 2 2 TCCTC 1 1 TCGTC 1 1 TCTCC 1 1 TGAGC 1 1 TTCTC 1 1 AAGCTC 2 2 ACAAGA 1 1 ACAGAG 1 1 ACCAGG 1 1 ACGGCG 1 1 AGAGAT 1 1 AGAGCA 1 1 AGATGG 1 1 ATACAG 1 1 ATATAA 1 1 ATATTC 1 1 ATCACA 1 1 ATGGGC 1 1 CAACCA 1 1 CAACCG 1 1 CACCGC 1 1 CATGGG 1 1 CCACCG 1 1 2 CCCGCC 1 1 CCGATG 1 1 CGCCGT 2 2 CGGCTC 1 1 CTCTCC 1 1 GAAGAG 1 1 GACAGA 1 1 GACGGC 1 1 GAGCAG 1 1 GCAGCC 1 1 GCAGCG 1 1 GCATCA 1 1 GCCACC 1 1 GCGGGA 2 2 GCTGGT 1 1 GGCATG 3 3 GGCGGA 1 1 GGCGTC 1 1 GTGGCA 1 1 TCCGTC 1 1 TCGCCA 1 1 TCTGCA 1 1 TCTTCC 1 1 TGCATG 1 1 TTCCCC 1 1 TTTTCC 1 1 Frequency of classified repeat types (considering sequence complementary) ------------------------------------------------------------------------- Repeats 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 total A/T - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 1 2 1 1 1 1 1 8 C/G - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 1 1 1 3 AC/GT - 134 74 47 32 24 8 7 7 5 3 4 2 1 3 1 1 353 AG/CT - 225 151 89 61 43 29 9 10 8 13 7 8 7 12 10 9 3 9 3 8 5 3 2 3 4 2 5 3 3 3 6 2 2 3 2 1 3 1 2 1 1 1 1 2 2 1 1 1 1 781 AT/AT - 63 36 32 10 8 10 1 3 6 2 2 2 1 2 4 1 2 1 2 1 189 CG/CG - 68 10 8 1 9 96 AAC/GTT 43 22 9 5 2 2 83 AAG/CTT 141 56 29 17 7 7 3 1 1 1 2 1 266 AAT/ATT 19 8 2 3 1 1 34 ACC/GGT 116 49 21 11 4 1 202 ACG/CTG 170 64 26 6 3 269 ACT/ATG 68 23 8 1 4 1 1 1 1 1 1 110 AGC/CGT 268 97 54 24 20 5 468 AGG/CCT 333 126 45 9 6 519 AGT/ATC 44 13 7 1 1 1 67 CCG/CGG 738 284 154 73 24 3 1 1 1 1279 AAAC/GTTT 9 9 AAAG/CTTT 6 1 7 AAAT/ATTT 1 1 AACC/GGTT 13 2 15 AACG/CTTG 6 6 AACT/ATTG 1 1 AAGC/CGTT 9 1 10 AAGG/CCTT 13 2 1 16 AAGT/ATTC 5 5 AATC/AGTT 2 2 AATG/ACTT 2 1 1 4 ACAG/CTGT 6 1 7 ACAT/ATGT 10 4 3 1 1 1 20 ACCC/GGGT 1 1 2 ACCG/CTGG 3 1 4 ACCT/ATGG 4 3 1 8 ACGC/CGTG 15 2 17 ACGG/CCTG 4 2 6 ACGT/ATGC 21 3 1 25 ACTC/AGTG 4 4 ACTG/ACTG 1 1 AGAT/ATCT 1 3 1 5 AGCC/CGGT 3 2 1 6 AGCG/CGCT 20 20 AGCT/ATCG 4 4 AGGC/CCGT 7 3 10 AGGG/CCCT 16 2 18 AGGT/ATCC 13 5 1 1 20 AGTC/AGTC 3 3 CCCG/CGGG 16 1 17 AACCC/GGGTT 1 1 2 AAGAC/CTGTT 1 1 AAGAG/CTCTT 3 1 4 AAGGG/CCCTT 4 4 AAGTG/ACTTC 1 1 ACACC/GGTGT 1 1 ACACG/CTGTG 1 1 ACCCC/GGGGT 3 1 4 ACGCC/CGGTG 1 1 ACGGT/ATGCC 1 1 ACTCC/AGGTG 1 1 ACTCG/AGCTG 3 3 ACTCT/AGATG 1 1 2 AGAGC/CGTCT 2 2 AGAGG/CCTCT 12 1 13 AGAGT/ATCTC 1 1 AGATC/AGTCT 2 2 AGGCG/CCGCT 1 1 AGGGC/CCCGT 3 3 AGGGG/CCCCT 4 3 7 AGGTC/AGTCC 1 1 AGTAT/ATATC 1 1 CCCCG/CGGGG 1 1 CCCGG/CCGGG 1 1 AAAAGG/CCTTTT 1 1 AAATAT/ATATTT 1 1 AACAAG/CTTGTT 1 1 AACCAC/GGTGTT 1 1 AACCGC/CGTTGG 1 1 AAGAGC/CGTTCT 1 1 AAGAGG/CCTTCT 1 1 AAGCTC/AGTTCG 2 2 AAGGAG/CCTCTT 1 1 AAGGGG/CCCCTT 1 1 AAGTAT/ATATTC 1 1 AATCAC/AGTGTT 1 1 ACACGT/ATGTGC 1 1 ACAGAG/CTCTGT 1 1 2 ACAGAT/ATGTCT 1 1 ACCACG/CTGGTG 1 1 ACCAGG/CCTGGT 1 1 ACCCGT/ATGGGC 4 1 5 ACCGCC/CGGTGG 1 2 1 4 ACCGTC/AGTGGC 1 1 ACCTCT/AGATGG 1 1 ACGGCG/CCGCTG 2 2 ACGGCT/ATGCCG 1 1 ACGTAG/ATCTGC 1 1 AGAGAT/ATCTCT 1 1 AGAGGC/CCGTCT 1 1 AGAGGG/CCCTCT 1 1 AGCAGG/CCTCGT 1 1 AGCATC/AGTCGT 1 1 AGCCGC/CGGCGT 2 2 AGCGGC/CCGTCG 3 3 AGCGGG/CCCTCG 2 2 AGCGGT/ATCGCC 1 1 AGGCCG/CCGGCT 1 1 AGGCGG/CCGCCT 1 1 CCCCCG/CGGGGG 1 1