Origin IGS: tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttatattttctcctttaaatgttgtaccacagcggcttgcgctcacaagcagcgctaccgagctggcggatttactagttgcttaagcgactagtttaata Mask Tandem Repeat Region ================================================ tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Find is-nt database================================================ Query_seq: SMT_173:SMT_174|SMT_173:SMT_174:50S ribosomal protein L2:30S ribosomal protein S19:->->:117468..117570 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_173:SMT_174|SMT_173:SMT_174:50S ribosomal protein L2:30S ribosomal protein S19:->->:117468..117570 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_173:SMT_174|SMT_173:SMT_174:50S ribosomal protein L2:30S ribosomal protein S19:->->:117468..117570 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Predict ORF larger than 30AA ================================================ tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa 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================================================ tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_173:SMT_174|SMT_173:SMT_174:50S ribosomal protein L2:30S ribosomal protein S19:->->:117468..117570 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: smit_SMT_173_SMT_174|50S ribosomal protein L2:30S ribosomal protein S19|POSITIVE:POSITIVE|[117468,117570]|103 HSP 1 e-value: 4.0E-52 bit: 204.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Inter-species Hit: Count: 3 Min: 1 Max: 103 Len: 103 Subject: NC_008533_SPD_0196_SPD_0197|ribosomal protein L2:ribosomal protein S19|POSITIVE:POSITIVE|[198498,198600]|103 HSP 1 e-value: 3.0E-40 bit: 165.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctccataggagtgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Subject: NC_003098_spr0191_spr0192|50S ribosomal protein L2:30S ribosomal protein S19|POSITIVE:POSITIVE|[198498,198600]|103 HSP 1 e-value: 3.0E-40 bit: 165.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctccataggagtgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Subject: NC_003028_SP_0212_SP_0213|50S ribosomal protein L2:30S ribosomal protein S19|POSITIVE:POSITIVE|[195989,196091]|103 HSP 1 e-value: 3.0E-40 bit: 165.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctgcttgtgagcgcaagccgctgtggtacaacatttaaaggagaaaatataaaa tattaaactagtcgcttaagcaactagtaaatccgccagctcggtagcgctccataggagtgcaagccgctgtggtacaacatttaaaggagaaaatataaaa Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUAAACUAGUCGCUUAAGCAACUAGUAAAUCCGCCAGCUCGGUAGCGCUGCUUGUGAGCGCAAGCCGCUGUGGUACAACAUUUAAAGGAGAAAAUAUAAAA ......((((((.((....)).))))))....((((.(((..(((.(((((.(....))))))..))))))))))............................ (-26.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAUAUUUUCUCCUUUAAAUGUUGUACCACAGCGGCUUGCGCUCACAAGCAGCGCUACCGAGCUGGCGGAUUUACUAGUUGCUUAAGCGACUAGUUUAAUA ....((((((........))))))....((.((((((...((((((....).)))))..))..))))..))....(((((((((....)))))))))...... (-28.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 72 33 70 25 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 371 68 32 77 39 smit:SMT_2074|5end_dTDP-glucose_4,6-dehydratase_1977021..1977251_POSITIVE 356 70 23 132 65 smit:SMT_1775|5end_K07478_putative_ATPase_1751836..1752066_NEGATIVE 352 71 34 44 4 smit:SMT_868|5end_D-alanyl-D-alanine_carboxypeptidase_817225..817455_NEGATIVE 351 77 34 90 32 smit:SMT_2059|5end_hypothetical_protein_1967881..1968111_POSITIVE 351 77 34 90 32 smit:SMT_2056|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1966323..1966553_POSITIVE 351 77 34 90 32 smit:SMT_1892|5end_hypothetical_protein_1845595..1845825_POSITIVE 347 77 35 52 1 smit:SMT_1981|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912261..1912491_POSITIVE 337 75 32 175 128 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 337 80 34 81 31 smit:SMT_614|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_524279..524509_POSITIVE 331 69 24 191 153 smit:SMT_1689|5end_PTS_enzyme,_maltose-and_glucose-specific,_factor_II_homologue_1671542..1671772_POSITIVE 324 79 34 178 138 smit:SMT_1647|5end_3-isopropylmalate_dehydratase_small_subunit_1633403..1633633_POSITIVE 321 81 46 58 17 smit:SMT_1469|5end_GTP_pyrophosphokinase_1450582..1450812_POSITIVE 321 76 31 230 196 smit:SMT_1205|5end_response_regulator_1165700..1165930_NEGATIVE 321 78 34 69 21 smit:SMT_1047|5end_chaperonin,_10_kDa_988090..988320_NEGATIVE 319 78 35 54 4 smit:SMT_1296|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1257290..1257520_POSITIVE 318 75 37 187 133 smit:SMT_1873|5end_K02006_cobalt_transport_system_ATP-binding_protein_1831936..1832166_POSITIVE 317 78 38 207 156 smit:SMT_1918|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1861935..1862165_NEGATIVE 316 70 24 130 79 smit:SMT_1915|5end_pyridoxine_biosynthesis_protein_1860329..1860559_POSITIVE 316 76 32 225 170 smit:SMT_1413|5end_putative_carbon-nitrogen_hydrolase_1397351..1397581_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 433 77 34 77 22 smit:SMT_780|3end_peptidase_family_U32_688752..688902_NEGATIVE 384 77 31 60 2 smit:SMT_1954|3end_6-phospho-beta-glucosidase_1888831..1888981_POSITIVE 371 68 32 50 12 smit:SMT_2073|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1977074..1977224_POSITIVE 356 70 23 76 9 smit:SMT_1776|3end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_1751892..1752042_NEGATIVE 352 71 34 41 1 smit:SMT_869|3end_hypothetical_protein_817228..817378_NEGATIVE 352 74 34 132 102 smit:SMT_798|3end_hypothetical_protein_707106..707256_POSITIVE 341 75 35 68 25 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 319 78 35 52 2 smit:SMT_1295|3end_transcriptional_regulator_CtsR_1257368..1257518_POSITIVE 315 78 33 64 16 smit:SMT_173|3end_50S_ribosomal_protein_L2_117407..117557_POSITIVE 308 68 23 68 22 smit:SMT_360|3end_K07742_hypothetical_protein_296001..296151_POSITIVE 306 76 35 67 8 smit:SMT_1140|3end_glycogen_phosphorylase_1081316..1081466_NEGATIVE 305 71 32 63 18 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 304 80 31 56 2 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 297 67 33 76 30 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 296 76 35 68 9 smit:SMT_1477|3end_K02077_zinc/manganese_transport_system_substrate-binding_protein_1459447..1459597_NEGATIVE 294 79 34 64 25 smit:SMT_1912|3end_D-alanyl-D-alanine_carboxypeptidase_1857807..1857957_NEGATIVE 294 79 34 64 25 smit:SMT_868|3end_D-alanyl-D-alanine_carboxypeptidase_816509..816659_NEGATIVE 292 48 2 144 94 smit:SMT_1202|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1163945..1164095_NEGATIVE 292 78 32 56 2 smit:SMT_622|3end_methionine_aminopeptidase_529441..529591_POSITIVE 291 68 33 150 110 smit:SMT_1014|3end_galactokinase_950645..950795_NEGATIVE