Origin IGS: tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatttaaaaaagagcaacattctcaaaaaaagaagcaaatagattgaaatggttactttatatacgttctattgaggagattgattttactgaggtggaagaatggataagtgaaggcagatttggagactaaa Mask Tandem Repeat Region ================================================ tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Find is-nt database================================================ Query_seq: SMT_905:SMT_906|SMT_905:SMT_906:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:853558..853691 134 tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_905:SMT_906|SMT_905:SMT_906:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:853558..853691 134 tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_905:SMT_906|SMT_905:SMT_906:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:853558..853691 134 tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 5 End: 91 .... * D G F R G E S I W E E V E T F D I E E I S R I Y L L W K M ........................................... tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt 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================================================ tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_905:SMT_906|SMT_905:SMT_906:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:853558..853691 134 tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: smit_SMT_905_SMT_906|hypothetical protein predicted by Glimmer/Critica:hypothetical protein|NEGATIVE:NEGATIVE|[853558,853691]|134 HSP 1 e-value: 6.0E-58 bit: 224.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttcnnnnnnngagaatgttgctcttttttaaatt tttagtctccaaatctgccttcacttatccattcttccacctcagtaaaatcaatctcctcaatagaacgtatataaagtaaccatttcaatctatttgcttctttttttgagaatgttgctcttttttaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAGUCUCCAAAUCUGCCUUCACUUAUCCAUUCUUCCACCUCAGUAAAAUCAAUCUCCUCAAUAGAACGUAUAUAAAGUAACCAUUUCAAUCUAUUUGCUUCUUUUUUUGAGAAUGUUGCUCUUUUUUAAAUU ...........................................(((((...((.((((......((((.(((.(((.................))).)))))))......)))).)))))))............ ( -8.83) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUAAAAAAGAGCAACAUUCUCAAAAAAAGAAGCAAAUAGAUUGAAAUGGUUACUUUAUAUACGUUCUAUUGAGGAGAUUGAUUUUACUGAGGUGGAAGAAUGGAUAAGUGAAGGCAGAUUUGGAGACUAAA .............((..((((.((((.................)))))))).((((((..(((.(.(((((((..(((((.....))).))..)))))))).)))...))))))..))......(....).... (-15.93) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 860 60 11 151 102 smit:SMT_905|5end_hypothetical_protein_predicted_by_Glimmer/Critica_853467..853697_NEGATIVE 290 44 1 111 60 smit:SMT_1537|5end_hypothetical_protein_1522668..1522898_NEGATIVE 284 58 15 102 58 smit:SMT_607|5end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_520119..520349_POSITIVE 281 50 4 47 4 smit:SMT_1552|5end_RNA_binding_protein_1535119..1535349_POSITIVE 276 128 97 176 139 smit:SMT_498|5end_hypothetical_protein_431751..431981_POSITIVE 271 59 16 105 58 smit:SMT_192|5end_translation_initiation_factor_IF-1_126500..126730_POSITIVE 269 45 1 175 118 smit:SMT_553|5end_hypothetical_protein_471128..471358_POSITIVE 253 23 1 129 109 smit:SMT_1028|5end_ABC-type_sugar_transport_system,_permease_component_964363..964593_NEGATIVE 251 90 42 129 82 smit:SMT_408|5end_hypothetical_protein_353087..353317_POSITIVE 250 39 1 63 24 smit:SMT_2126|5end_indole-3-glycerol_phosphate_synthase_2009107..2009337_POSITIVE 250 39 1 63 24 smit:SMT_1751|5end_indole-3-glycerol_phosphate_synthase_1729012..1729242_POSITIVE 248 47 14 177 145 smit:SMT_1114|5end_competence_protein_1052555..1052785_NEGATIVE 244 67 24 109 62 smit:SMT_1361|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1341402..1341632_NEGATIVE 244 44 4 137 106 smit:SMT_1188|5end_hypothetical_protein_1146653..1146883_NEGATIVE 242 59 12 184 142 smit:SMT_1201|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1163920..1164150_NEGATIVE 240 65 24 113 51 smit:SMT_807|5end_hypothetical_protein_predicted_by_Glimmer/Critica_716815..717045_NEGATIVE 240 68 22 137 89 smit:SMT_104|5end_DNA_repair_protein_49623..49853_POSITIVE 239 43 4 121 80 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 238 66 29 205 162 smit:SMT_1192|5end_phosphoribosylaminoimidazolecarboxamide_formyltransferase_/_IMP_cyclohydrolase_1151406..1151636_NEGATIVE 233 41 7 227 183 smit:SMT_1287|5end_50S_ribosomal_protein_L9_1250358..1250588_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 290 44 1 110 59 smit:SMT_1538|3end_two-component_response_regulator_YvqC_1522669..1522819_NEGATIVE 284 58 15 50 6 smit:SMT_606|3end_cytochrome_c-type_biogenesis_protein_CcdA_520147..520297_POSITIVE 281 50 4 50 7 smit:SMT_1551|3end_K02221_YggT_family_protein_1535202..1535352_POSITIVE 269 45 1 147 90 smit:SMT_552|3end_DNA_polymerase_III,_gamma_and_tau_subunits_471180..471330_POSITIVE 258 46 3 147 101 smit:SMT_1912|3end_D-alanyl-D-alanine_carboxypeptidase_1857807..1857957_NEGATIVE 258 46 3 147 101 smit:SMT_868|3end_D-alanyl-D-alanine_carboxypeptidase_816509..816659_NEGATIVE 253 23 1 110 90 smit:SMT_1029|3end_K02027_multiple_sugar_transport_system_substrate-binding_protein_964382..964532_NEGATIVE 251 90 42 128 81 smit:SMT_463|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_402839..402989_POSITIVE 251 90 42 128 81 smit:SMT_407|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_353166..353316_POSITIVE 250 39 1 66 27 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 244 67 24 97 50 smit:SMT_1362|3end_chaperone_protein_hscC_1341414..1341564_NEGATIVE 244 44 4 127 96 smit:SMT_1189|3end_phosphoribosylaminoimidazole_carboxylase_ATPase_subunit_1146663..1146813_NEGATIVE 240 48 3 146 109 smit:SMT_1202|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1163945..1164095_NEGATIVE 239 43 4 119 78 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 239 124 97 151 118 smit:SMT_497|3end_hypothetical_protein_431810..431960_POSITIVE 236 44 2 151 108 smit:SMT_461|3end_mannose-6-phosphate_isomerase_400403..400553_POSITIVE 231 90 41 104 52 smit:SMT_1760|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1735743..1735893_NEGATIVE 228 45 7 143 107 smit:SMT_1627|3end_hypothetical_protein_1616089..1616239_NEGATIVE 226 58 14 92 32 smit:SMT_1251|3end_hypothetical_protein_1211329..1211479_NEGATIVE 226 52 14 84 43 smit:SMT_589|3end_hypothetical_protein_506827..506977_POSITIVE