Specifications ============== Sequence source file: "out_contigs_filter_2000bp_rm_dup.fasta" Definement of microsatellites (unit size / minimum number of repeats): (1/10) (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: 21788 Total size of examined sequences (bp): 66608069 Total number of identified SSRs: 18111 Number of SSR containing sequences: 10969 Number of sequences containing more than 1 SSR: 4549 Number of SSRs present in compound formation: 1323 Distribution to different repeat type classes --------------------------------------------- Unit size Number of SSRs 1 13207 2 2960 3 1644 4 203 5 53 6 44 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 total A - - - - - 4264 1578 759 399 263 192 114 49 35 17 2 6 4 1 1 7684 C - - - - - 38 30 20 11 2 1 1 103 G - - - - - 41 19 19 9 3 91 T - - - - - 3090 1090 499 251 187 89 51 34 15 9 6 3 2 2 1 5329 AC - 75 56 50 45 19 16 20 14 7 5 4 4 3 2 2 1 323 AG - 121 61 47 22 13 18 13 12 9 9 3 4 1 5 1 1 340 AT - 159 102 71 37 26 12 6 10 3 3 1 3 3 4 1 1 1 443 CA - 45 24 14 6 8 3 7 4 4 2 6 3 2 1 129 CG - 4 1 1 6 CT - 83 37 29 28 13 11 5 6 8 5 2 3 3 1 2 1 237 GA - 102 44 40 23 13 14 5 7 6 4 2 1 1 1 263 GC - 9 6 5 3 23 GT - 54 30 16 24 8 8 4 5 4 2 4 2 161 TA - 215 87 73 52 31 20 18 4 3 4 3 1 511 TC - 95 48 36 26 12 7 9 9 4 5 4 3 2 1 261 TG - 84 48 26 21 16 13 11 13 5 6 6 5 4 1 1 1 2 263 AAC 27 10 9 7 8 2 1 64 AAG 52 30 14 6 8 1 1 3 1 116 AAT 47 23 21 9 1 2 4 1 1 1 2 112 ACA 7 6 1 3 1 18 ACC 3 1 1 1 6 ACT 2 1 3 AGA 27 12 7 4 2 2 1 1 1 1 1 1 60 AGC 12 5 3 20 AGG 13 3 1 1 1 19 AGT 4 1 5 ATA 30 19 9 6 3 1 2 1 71 ATC 20 6 3 1 1 31 ATG 15 7 1 2 1 4 3 33 ATT 39 13 9 7 3 5 3 1 1 81 CAA 16 6 3 1 26 CAC 5 2 2 1 10 CAG 6 4 4 1 15 CAT 14 3 2 1 1 21 CCA 6 2 3 11 CCG 1 1 2 CCT 8 5 2 15 CGC 1 1 2 CGT 4 2 6 CTA 4 1 5 CTC 15 3 1 1 2 1 23 CTG 6 4 1 11 CTT 22 13 7 8 4 3 1 1 2 61 GAA 47 17 3 4 1 1 1 74 GAC 2 1 3 GAG 9 6 3 2 4 1 25 GAT 10 4 3 2 1 20 GCA 9 4 1 14 GCC 2 2 GCG 2 1 3 GCT 5 1 1 1 1 9 GGA 16 4 3 1 24 GGC 1 1 2 GGT 7 1 1 9 GTA 1 1 2 GTC 3 1 1 5 GTG 6 3 2 11 GTT 10 2 2 1 1 2 18 TAA 36 13 6 3 1 2 1 62 TAC 2 5 1 8 TAG 2 1 1 1 5 TAT 17 10 7 2 1 2 39 TCA 15 9 3 1 1 1 30 TCC 14 3 17 TCG 2 2 1 5 TCT 30 9 6 4 1 50 TGA 14 10 4 6 34 TGC 11 4 1 1 1 18 TGG 10 5 5 3 2 1 26 TGT 7 3 3 1 14 TTA 69 22 12 5 4 5 2 1 1 121 TTC 55 18 10 3 3 2 1 2 1 95 TTG 21 12 8 5 2 2 2 52 AAAG 6 4 10 AAAT 18 4 1 23 AAGA 1 1 2 AAGG 1 1 AATA 6 2 8 AATG 2 2 AATT 3 3 ACAA 1 1 ACAG 1 1 ACAT 1 1 AGAA 2 1 3 AGAC 1 1 AGAT 1 1 AGCT 2 2 AGGG 2 2 AGTT 1 1 ATAA 9 2 11 ATAC 1 2 1 4 ATAG 1 1 ATGC 1 1 ATGT 1 1 2 ATTT 3 3 CAAA 1 1 CAAC 1 1 CATA 2 2 CATC 1 1 2 CATG 1 1 2 CCCT 1 1 CCTC 1 1 CCTT 1 1 CTAA 3 1 1 5 CTAG 2 2 CTAT 1 1 CTCC 1 1 CTTC 1 1 CTTT 1 1 GAAA 5 1 6 GAGG 2 2 GATA 2 2 GATG 1 1 2 GCAT 1 1 GCCA 1 1 GGAG 1 1 GGAT 1 1 GGCT 2 2 GGTT 1 1 GTGC 1 1 GTTC 1 1 GTTT 1 1 2 TAAA 4 4 TAAT 4 1 5 TACA 1 1 TAGC 1 1 TATG 2 2 4 TATT 6 2 1 9 TCCC 1 1 TCCT 1 1 TCTA 1 1 TCTT 4 2 6 TGGC 1 1 TGTA 1 1 TTAT 9 1 10 TTCA 1 1 TTCT 2 1 3 TTTA 13 5 1 19 TTTC 5 5 TTTG 1 1 AAAAG 3 1 4 AAACC 2 2 AAAGA 1 1 AAAGG 1 1 AACAG 1 1 AACCG 1 1 AAGAA 1 1 2 AAGAG 1 1 AAGCA 1 1 AATAA 4 4 AATTT 1 1 ACAAA 1 1 ACATG 1 1 AGAAA 1 1 AGAGG 1 1 ATAAG 1 1 ATATC 1 1 ATTTT 1 1 CAATC 1 1 CCATG 1 1 CCTTC 1 1 CGTGT 1 1 CTTTC 1 1 CTTTT 5 5 GAACC 1 1 GATTA 1 1 GCTGT 1 1 GTGGT 1 1 TATGG 1 1 TATTT 1 1 TCACC 1 1 TCTCT 1 1 TGCTT 1 1 TGGCT 1 1 TTAAT 1 1 TTATT 1 1 TTCTT 1 1 TTTAT 1 1 TTTCT 1 1 TTTTA 1 1 2 AAAAAG 1 1 AAAAAT 1 1 AAACCA 1 1 AAGTCC 1 1 AATTTG 1 1 AGATTA 1 1 ATAAAA 1 1 ATTTTT 1 1 CATCAC 1 1 CATTTA 1 1 CCCCTT 1 1 CCCTCT 1 1 CCTCCA 1 1 CTGATA 1 1 CTTTTC 1 1 GAAAAA 1 1 GAAAAG 1 1 GAAGGG 1 1 GAGGCG 1 1 GCAACA 1 1 GCCATT 1 1 GGGAGC 1 1 GGTGAT 1 1 GGTGGA 1 1 GGTTCG 1 1 GTAATA 1 1 GTCGAG 1 1 TAGTAA 1 1 TATAGG 1 1 TATTTT 1 1 TCAAGG 1 1 TCCATT 1 1 TCCCAC 1 1 TGATGC 1 1 TGATGG 1 1 TGTGGG 1 1 TGTTGA 1 1 TGTTTT 1 1 TTATTG 1 1 TTATTT 1 1 TTCCAC 1 1 TTTAAA 1 1 TTTATC 1 1 TTTTCT 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 total A/T - - - - - 7354 2668 1258 650 450 281 165 83 50 26 8 9 6 3 1 1 13013 C/G - - - - - 79 49 39 20 5 1 1 194 AC/GT - 258 158 106 96 51 40 42 36 20 15 20 14 9 4 3 1 3 876 AG/CT - 401 190 152 99 51 50 32 34 27 23 11 11 6 7 1 3 1 2 1101 AT/AT - 374 189 144 89 57 32 24 14 6 7 4 4 3 4 1 1 1 954 CG/CG - 13 7 6 3 29 AAC/GTT 88 39 24 19 11 5 5 1 192 AAG/CTT 233 99 47 29 19 9 5 5 3 3 1 2 1 456 AAT/ATT 238 100 64 32 13 15 11 3 4 2 4 486 ACC/GGT 37 14 13 5 3 1 73 ACG/CGT 11 6 2 19 ACT/AGT 15 7 4 1 1 28 AGC/CTG 49 22 10 3 1 2 87 AGG/CCT 75 24 5 6 9 3 1 123 ATC/ATG 88 39 16 10 3 7 1 5 169 CCG/CGG 7 2 1 1 11 AAAC/GTTT 3 2 5 AAAG/CTTT 26 8 2 36 AAAT/ATTT 68 16 3 87 AACC/GGTT 2 2 AACG/CGTT 1 1 AACT/AGTT 3 1 1 1 6 AAGG/CCTT 4 4 AATG/ATTC 3 3 AATT/AATT 7 1 8 ACAG/CTGT 2 2 ACAT/ATGT 8 3 2 2 15 ACGC/CGTG 1 1 AGAT/ATCT 3 2 1 6 AGCC/CTGG 3 1 4 AGCT/AGCT 5 5 AGGG/CCCT 4 5 9 ATCC/ATGG 3 1 1 5 ATGC/ATGC 3 1 4 AAAAC/GTTTT 1 1 AAAAG/CTTTT 13 1 1 15 AAAAT/ATTTT 9 1 10 AAACC/GGTTT 2 2 AAAGC/CTTTG 2 2 AAAGG/CCTTT 2 2 AAATT/AATTT 2 2 AACAG/CTGTT 1 1 AACCG/CGGTT 1 1 2 AAGAG/CTCTT 1 1 2 AAGAT/ATCTT 1 1 AAGCC/CTTGG 1 1 AAGGG/CCCTT 1 1 AATCC/ATTGG 1 1 AATCT/AGATT 1 1 ACACC/GGTGT 1 1 ACACG/CGTGT 1 1 ACAGC/CTGTG 1 1 ACATG/ATGTC 1 1 ACCAT/ATGGT 1 1 ACCTC/AGGTG 1 1 AGAGG/CCTCT 1 1 ATATC/ATATG 1 1 ATGCC/ATGGC 1 1 AAAAAC/GTTTTT 1 1 AAAAAG/CTTTTT 2 1 3 AAAAAT/ATTTTT 4 1 5 AAAACC/GGTTTT 1 1 AAAAGG/CCTTTT 2 2 AAAGAT/ATCTTT 1 1 AAATGG/ATTTCC 1 1 AAATGT/ACATTT 1 1 AAATTC/AATTTG 1 1 AAATTT/AAATTT 1 1 AACAAT/ATTGTT 1 1 AACAGC/CTGTTG 1 1 AACATC/ATGTTG 1 1 AACCCG/CGGGTT 1 1 AAGATT/AATCTT 1 1 AAGGGG/CCCCTT 1 1 2 AAGGTC/ACCTTG 1 1 AAGTCC/ACTTGG 1 1 AAGTGG/ACTTCC 1 1 AATAGT/ACTATT 1 1 2 AATGGC/ATTGCC 1 1 ACACCC/GGGTGT 1 1 ACCATC/ATGGTG 2 1 3 ACCTAT/AGGTAT 1 1 ACCTCC/AGGTGG 2 2 ACCTCG/AGGTCG 1 1 ACTCCC/AGTGGG 1 1 ACTGAT/AGTATC 1 1 AGAGGG/CCCTCT 1 1 AGCATC/ATGCTG 1 1 AGCGGG/CCCGCT 1 1 AGGCGG/CCGCCT 1 1