Origin IGS: agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 nnnnncttgatacatttctcgttctggcggaataatatcctgctctctaaaaatgaatcttcagtaaaatgtgctgatgtcacccatcatccaagtaaatctacattct Mask Tandem Repeat Region ================================================ agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Find is-nt database================================================ Query_seq: SMT_1881:SMT_1882|SMT_1881:SMT_1882:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1837842..1837950 109 agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1881:SMT_1882|SMT_1881:SMT_1882:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1837842..1837950 109 agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1881:SMT_1882|SMT_1881:SMT_1882:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1837842..1837950 109 agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 2 End: 103 . F T S K S P H H T V D A C K V S S E N K S L L I N N R W F S F H I M ...... agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1881:SMT_1882|SMT_1881:SMT_1882:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1837842..1837950 109 agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaagnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: smit_SMT_1881_SMT_1882|hypothetical protein:hypothetical protein predicted by Glimmer/Critica|POSITIVE:NEGATIVE|[1837842,1837950]|109 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaag..... agaatgtagatttacttggatgatgggtgacatcagcacattttactgaagattcatttttagagagcaggatattattccgccagaacgagaaatgtatcaag..... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAUGUAGAUUUACUUGGAUGAUGGGUGACAUCAGCACAUUUUACUGAAGAUUCAUUUUUAGAGAGCAGGAUAUUAUUCCGCCAGAACGAGAAAUGUAUCAAG ..............(((((.(((((.....)))))..(((((((.(((((((....))))))).(.((.(((......)))))).......))))))).))))) (-20.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUGAUACAUUUCUCGUUCUGGCGGAAUAAUAUCCUGCUCUCUAAAAAUGAAUCUUCAGUAAAAUGUGCUGAUGUCACCCAUCAUCCAAGUAAAUCUACAUUCU ...(((.(((((........((((((......))).)))......))))).)))....(((.....((((((((........))))..))))....)))..... (-14.04) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 70 23 220 165 smit:SMT_1865|5end_D-alanyl_carrier_protein_1827058..1827288_POSITIVE 320 70 23 223 168 smit:SMT_1312|5end_D-alanyl_carrier_protein_1277042..1277272_POSITIVE 278 53 15 212 177 smit:SMT_1039|5end_tRNA_(uracil-5-)_-methyltransferase_982698..982928_NEGATIVE 273 86 43 167 113 smit:SMT_1088|5end_hypothetical_protein_1024346..1024576_NEGATIVE 260 70 21 127 77 smit:SMT_304|5end_hypothetical_protein_246580..246810_POSITIVE 255 67 28 67 29 smit:SMT_939|5end_phosphomethylpyrimidine_kinase_892025..892255_NEGATIVE 250 93 55 227 177 smit:SMT_1358|5end_dihydroorotate_dehydrogenase_B_1337192..1337422_NEGATIVE 238 93 66 204 174 smit:SMT_168|5end_anaerobic_ribonucleoside-triphosphate_reductase_activating_protein_113670..113900_POSITIVE 237 59 18 93 52 smit:SMT_949|5end_glycosyl_transferase,_family_2_897693..897923_NEGATIVE 236 60 19 58 8 smit:SMT_1115|5end_K02245_competence_protein_ComGC_1052796..1053026_NEGATIVE 234 37 5 145 106 smit:SMT_1873|5end_K02006_cobalt_transport_system_ATP-binding_protein_1831936..1832166_POSITIVE 231 99 51 165 120 smit:SMT_2114|5end_x-prolyl-dipeptidyl_aminopeptidase_2001484..2001714_POSITIVE 230 100 63 155 115 smit:SMT_312|5end_acetyl-CoA_carboxylase,_biotin_carboxyl_carrier_protein_253361..253591_POSITIVE 228 83 45 178 137 smit:SMT_1418|5end_lysine_decarboxylase_1403147..1403377_NEGATIVE 225 70 23 210 158 smit:SMT_1856|5end_polypeptide_deformylase_1820650..1820880_POSITIVE 224 44 2 226 185 smit:SMT_1491|5end_capsular_polysaccharide_biosynthesis_protein,_putative_1471588..1471818_POSITIVE 222 39 5 51 11 smit:SMT_1207|5end_choline_binding_protein_A_1168420..1168650_NEGATIVE 220 30 1 209 173 smit:SMT_1069|5end_acetyl_xylan_esterase,_putative_1009330..1009560_POSITIVE 220 50 14 215 180 smit:SMT_923|5end_methionyl-tRNA_formyltransferase_877494..877724_NEGATIVE 219 81 45 176 144 smit:SMT_237|5end_aminopeptidase_C_175226..175456_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 255 67 28 77 39 smit:SMT_940|3end_tRNA_pseudouridine_synthase_A_892015..892165_NEGATIVE 237 59 18 109 68 smit:SMT_950|3end_UDP-glucose_4-epimerase_897677..897827_NEGATIVE 236 60 19 56 6 smit:SMT_1116|3end_K02244_competence_protein_ComGB_1052798..1052948_NEGATIVE 224 72 31 74 36 smit:SMT_481|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_417641..417791_NEGATIVE 219 81 45 81 49 smit:SMT_236|3end_ribosomal_small_subunit_pseudouridine_synthase_A_175211..175361_POSITIVE 217 53 13 56 13 smit:SMT_1451|3end_K02057_simple_sugar_transport_system_permease_protein_1433625..1433775_NEGATIVE 217 91 57 139 108 smit:SMT_580|3end_K04094_glucose_inhibited_division_protein_Gid_498034..498184_POSITIVE 217 99 63 151 112 smit:SMT_311|3end_3-oxoacyl-_253438..253588_POSITIVE 214 47 3 112 64 smit:SMT_895|3end_cysteinyl-tRNA_synthetase_841694..841844_NEGATIVE 212 84 61 105 83 smit:SMT_1043|3end_chaperonin_GroEL_985110..985260_NEGATIVE 211 55 16 47 5 smit:SMT_1531|3end_hypothetical_protein_1515449..1515599_NEGATIVE 209 40 5 145 110 smit:SMT_1036|3end_alpha-galactosidase_978160..978310_NEGATIVE 209 66 23 53 2 smit:SMT_1018|3end_hypothetical_protein_predicted_by_Glimmer/Critica_954739..954889_POSITIVE 208 79 39 126 83 smit:SMT_854|3end_hypothetical_protein_799322..799472_NEGATIVE 206 91 56 149 112 smit:SMT_1470|3end_K06188_aquaporin_Z_1453266..1453416_POSITIVE 203 48 4 75 26 smit:SMT_850|3end_hypothetical_protein_796124..796274_NEGATIVE 202 33 5 83 54 smit:SMT_1840|3end_6-phosphogluconate_dehydrogenase,_decarboxylating_1806007..1806157_NEGATIVE 202 50 5 74 25 smit:SMT_1614|3end_K08998_hypothetical_protein_1601652..1601802_POSITIVE 202 48 5 151 105 smit:SMT_1474|3end_K02003_1455951..1456101_POSITIVE 202 90 46 51 7 smit:SMT_126|3end_hypothetical_membrane_associated_protein_77657..77807_NEGATIVE