Origin IGS: tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataaaaacctttcaacaataaaaattaaacactccgattaaactgactagtaaatagccaacactacaaacagcctgtgccagcaacatatggtgactagaaatgactgtagtatgtcaccatcttgtcttatgcacttytctaaattgtatattgattagagccagagcttataaaactagctaactcgagagatagacacaattgnnnnnttaattaattaannnnntgagtccactgctacgtttgttgtgccca Mask Tandem Repeat Region ================================================ tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Find is-nt database================================================ Query_seq: SMT_2105:SMT_2106|SMT_2105:SMT_2106:hypothetical protein predicted by Glimmer/Critica:unknown, predicted membrane protein (TMS5):->->:1997045..1997302 258 tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2105:SMT_2106|SMT_2105:SMT_2106:hypothetical protein predicted by Glimmer/Critica:unknown, predicted membrane protein (TMS5):->->:1997045..1997302 258 tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2105:SMT_2106|SMT_2105:SMT_2106:hypothetical protein predicted by Glimmer/Critica:unknown, predicted membrane protein (TMS5):->->:1997045..1997302 258 tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 105 End: 209 ........................................................................................................ M Y N L E K C I R Q D G D I L Q S F L V T I C C W H R L F V V L A I Y ................................................. Protein_Len: 30 Strand: + Start: 155 End: 244 .......................................................................................................................................................... M S S H H M L L A Q A V C S V G Y L L V S L I G V F N F Y C .............. Protein_Len: 35 Strand: - Start: 101 End: 205 .................................................................................................... D I Y L K S F H M L C S P S M S C D N R T V M H Q Q C L S N T T N A M ..................................................... tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat 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================================================ tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 42 HP_score: -3.0 Tail_Score: -2.84229 Start: 199 End: 215 Full_Region: GGCTGTTTGTAGTGT TGGCTA TTTAC TAGTCA GTTTAATCGGAGTGT ......................................................................................................................................................................................................TGGCTATTTACTAGTCA........................................... Find igs database================================================ Query_seq: SMT_2105:SMT_2106|SMT_2105:SMT_2106:hypothetical protein predicted by Glimmer/Critica:unknown, predicted membrane protein (TMS5):->->:1997045..1997302 258 tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Intra-Species Hit: Count: 2 Min: 1 Max: 258 Len: 258 Subject: smit_SMT_2105_SMT_2106|hypothetical protein predicted by Glimmer/Critica:unknown, predicted membrane protein (TMS5)|POSITIVE:POSITIVE|[1997045,1997302]|258 HSP 1 e-value: 1.0E-125 bit: 449.0 Len: 258 Query Start:1 Query End:258 Subject Strand: POSITIVE Subject Start: 1 Subject End: 258 tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat tgggcacaacaaacgtagcagtggactcannnnnttaattaattaannnnncaattgtgtctatctctcgagttagctagttttataagctctggctctaatcaatatacaatttagaraagtgcataagacaagatggtgacatactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Subject: smit_SMT_1770_SMT_1771|hypothetical protein:unknown, predicted membrane protein (TMS5)|NEGATIVE:POSITIVE|[1746596,1747576]|981 HSP 1 e-value: 9.0E-85 bit: 314.0 Len: 207 Query Start:52 Query End:258 Subject Strand: POSITIVE Subject Start: 770 Subject End: 981 ...................................................caattgtgtctatctctcgagtt-agctagtttt-ataagctctggct-ctaatcaatata-caatttagaraagtgcataagacaagatggtgacat-actacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat ...................................................caattgtgtctatctctcgagtttagctagtttttataagctctggcttctaatcaatataacaaattttagaagtgcataagacaagatggtgacattactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Inter-species Hit: Count: 1 Min: 52 Max: 258 Len: 207 Subject: NC_009009_SSA_0230_SSA_0231|hypothetical protein:Conserved uncharacterized protein|NEGATIVE:POSITIVE|[225048,225852]|805 HSP 1 e-value: 2.0E-82 bit: 306.0 Len: 207 Query Start:52 Query End:258 Subject Strand: POSITIVE Subject Start: 594 Subject End: 805 ...................................................caattgtgtctatctctcgagtt-agctagtttt-ataagctctggct-ctaatcaatata-caatttagaraagtgcataagacaagatggtgacat-actacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat ...................................................caattgtgtctatctctcgagtttagctagtttttataagctctggtttctaatcaatataacaaattttagaagtgcataagacaagatggtgacattactacagtcatttctagtcaccatatgttgctggcacaggctgtttgtagtgttggctatttactagtcagtttaatcggagtgtttaatttttattgttgaaaggtttttat Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAUUGUGUCUAUCUCUCGAGUUAGCUAGUUUUAUAAGCUCUGGCUCUAAUCAAUAUACAAUUUAGARAAGUGCAUAAGACAAGAUGGUGACAUACUACAGUCAUUUCUAGUCACCAUAUGUUGCUGGCACAGGCUGUUUGUAGUGUUGGCUAUUUACUAGUCAGUUUAAUCGGAGUGUUUAAUUUUUAUUGUUGAAAGGUUUUUAU .............(((.(((....((((((..((((.((.((...(((((............)))))..)).))....(((.(((.((((((........))))))))).)))....))))..))))))...((((((..(((((....)))))..)).)))).......))))))..((((((.......)))))).......... (-45.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAAAACCUUUCAACAAUAAAAAUUAAACACUCCGAUUAAACUGACUAGUAAAUAGCCAACACUACAAACAGCCUGUGCCAGCAACAUAUGGUGACUAGAAAUGACUGUAGUAUGUCACCAUCUUGUCUUAUGCACUUYUCUAAAUUGUAUAUUGAUUAGAGCCAGAGCUUAUAAAACUAGCUAACUCGAGAGAUAGACACAAUUG ........(((((..................(((..(((((..((.(((.....))).))....(((((..((...((((.....(((.((((((((..................))))))))..))).....))))....))...)))))..)))))..)))....((((.........)))).....)))))............. (-34.77) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 153 111 120 57 smit:SMT_489|5end_K01999_branched-chain_amino_acid_transport_system_substrate-binding_protein_423669..423899_POSITIVE 312 178 131 157 106 smit:SMT_595|5end_phosphoglycerate_mutase_512593..512823_NEGATIVE 294 130 87 192 148 smit:SMT_1006|5end_6-pyruvoyl_tetrahydrobiopterin_synthase,_putative_946599..946829_POSITIVE 294 159 112 227 176 smit:SMT_563|5end_thioredoxin_reductase_480988..481218_POSITIVE 292 177 133 58 8 smit:SMT_347|5end_hypothetical_protein_286210..286440_NEGATIVE 288 150 101 187 126 smit:SMT_1607|5end_K03341_putative_deoxyribonucleotide_triphosphate_pyrophosphatase_1596648..1596878_POSITIVE 282 55 18 192 148 smit:SMT_1158|5end_DNA_gyrase_subunit_B_1103957..1104187_NEGATIVE 282 167 121 69 6 smit:SMT_1105|5end_K03217_preprotein_translocase_YidC_subunit_1047632..1047862_NEGATIVE 281 166 124 208 148 smit:SMT_366|5end_hypothetical_protein_302085..302315_POSITIVE 278 116 71 62 12 smit:SMT_1627|5end_hypothetical_protein_1616415..1616645_NEGATIVE 276 150 106 193 142 smit:SMT_936|5end_cobyric_acid_synthase_888669..888899_POSITIVE 275 164 124 152 115 smit:SMT_1067|5end_alanine_racemase_1005769..1005999_POSITIVE 275 159 115 68 22 smit:SMT_856|5end_peroxide_resistance_protein,non-heme_iron-containing_ferritin_800648..800878_NEGATIVE 274 150 110 70 41 smit:SMT_173|5end_50S_ribosomal_protein_L2_116494..116724_POSITIVE 273 153 111 221 179 smit:SMT_2008|5end_K07485_transposase_1928662..1928892_NEGATIVE 273 153 111 90 48 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 273 153 111 184 142 smit:SMT_1967|5end_dicarboxylate/amino_acid:cation_(Na+_or_H+)_symporter_(DAACS)_family_protein_1899683..1899913_NEGATIVE 273 153 111 184 142 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 273 153 111 228 186 smit:SMT_1954|5end_6-phospho-beta-glucosidase_1888548..1888778_POSITIVE 273 153 111 219 177 smit:SMT_1944|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1879494..1879724_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 167 121 100 37 smit:SMT_1106|3end_ribonuclease_P_protein_component_1047601..1047751_NEGATIVE 274 150 110 52 23 smit:SMT_172|3end_50S_ribosomal_protein_L23_116556..116706_POSITIVE 273 153 111 55 13 smit:SMT_1956|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1889537..1889687_NEGATIVE 273 153 111 50 8 smit:SMT_387|3end_hypothetical_protein_predicted_by_Glimmer/Critica_321118..321268_POSITIVE 273 170 122 75 26 smit:SMT_173|3end_50S_ribosomal_protein_L2_117407..117557_POSITIVE 272 135 92 49 9 smit:SMT_175|3end_50S_ribosomal_protein_L22_118148..118298_POSITIVE 271 151 124 48 20 smit:SMT_2109|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1999061..1999211_NEGATIVE 271 151 124 49 21 smit:SMT_1477|3end_K02077_zinc/manganese_transport_system_substrate-binding_protein_1459447..1459597_NEGATIVE 271 151 124 48 20 smit:SMT_1180|3end_putative_tagatose-6-phosphate_aldose/ketose_isomerase_1138036..1138186_NEGATIVE 264 139 99 140 92 smit:SMT_1737|3end_peptidyl-prolyl_cis-trans_isomerase_1720598..1720748_POSITIVE 263 156 122 106 74 smit:SMT_1300|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1262614..1262764_NEGATIVE 260 152 115 150 111 smit:SMT_1066|3end_holo-(acyl_carrier_protein)_synthase_1005859..1006009_POSITIVE 259 168 121 73 19 smit:SMT_1938|3end_zinc_metalloprotease_ZmpB,_putative_1876230..1876380_POSITIVE 259 150 102 142 91 smit:SMT_397|3end_NAD(+)_synthetase_327423..327573_POSITIVE 258 130 82 118 70 smit:SMT_460|3end_6-phospho-beta-glucosidase_399338..399488_POSITIVE 255 169 126 98 55 smit:SMT_1993|3end_hypothetical_protein_1919207..1919357_NEGATIVE 255 169 126 98 55 smit:SMT_1416|3end_hypothetical_protein_1399570..1399720_NEGATIVE 255 148 103 80 27 smit:SMT_623|3end_50S_ribosomal_protein_L21_529812..529962_POSITIVE 253 176 131 143 106 smit:SMT_327|3end_hypothetical_protein_264704..264854_POSITIVE 248 140 92 131 100 smit:SMT_2042|3end_K04077_chaperonin_GroEL_(Hsp60)_1952960..1953110_NEGATIVE