Origin IGS: gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gctttctatagaaaacaacttataaaaaacacaaaaggagggaatggctattcctcctttttatgatattcacttctaaatagatttgagctctcctaacttatatgataaaataagactataaaaaggagaagaac Mask Tandem Repeat Region ================================================ gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Find is-nt database================================================ Query_seq: SMT_1042:SMT_1043|SMT_1042:SMT_1043:hypothetical cytosolic protein:chaperonin GroEL:<-<-:985063..985199 137 gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1042:SMT_1043|SMT_1042:SMT_1043:hypothetical cytosolic protein:chaperonin GroEL:<-<-:985063..985199 137 gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1042:SMT_1043|SMT_1042:SMT_1043:hypothetical cytosolic protein:chaperonin GroEL:<-<-:985063..985199 137 gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Predict ORF larger than 30AA ================================================ gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 24 End: 53 .......................TTTGAGCTCTCCTAACTTATATGATAAAAT.................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 77 HP_score: -4.8 Tail_Score: -5.3236 Start: 73 End: 108 Full_Region: TTTAGAAGTGAATAT CATAAAAAGGAGGAAT AGCC ATTCCCTCCTTTTGTG TTTTTTATAAGTTGT ........................................................................CATAAAAAGGAGGAATAGCCATTCCCTCCTTTTGTG............................. Find igs database================================================ Query_seq: SMT_1042:SMT_1043|SMT_1042:SMT_1043:hypothetical cytosolic protein:chaperonin GroEL:<-<-:985063..985199 137 gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: smit_SMT_1042_SMT_1043|hypothetical cytosolic protein:chaperonin GroEL|NEGATIVE:NEGATIVE|[985063,985199]|137 HSP 1 e-value: 3.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc gttcttctcctttttatagtcttattttatcatataagttaggagagctcaaatctatttagaagtgaatatcataaaaaggaggaatagccattccctccttttgtgttttttataagttgttttctatagaaagc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUCUUCUCCUUUUUAUAGUCUUAUUUUAUCAUAUAAGUUAGGAGAGCUCAAAUCUAUUUAGAAGUGAAUAUCAUAAAAAGGAGGAAUAGCCAUUCCCUCCUUUUGUGUUUUUUAUAAGUUGUUUUCUAUAGAAAGC ....(((((((.((((((..............))))))..))))))).................(((((...(((((((.((((((((....))).))))))))))))...))))).....((((((....)))))) (-28.84) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUUUCUAUAGAAAACAACUUAUAAAAAACACAAAAGGAGGGAAUGGCUAUUCCUCCUUUUUAUGAUAUUCACUUCUAAAUAGAUUUGAGCUCUCCUAACUUAUAUGAUAAAAUAAGACUAUAAAAAGGAGAAGAAC (((((((((((((...................(((((((((((.......)))))))))))..((.....)).)))))..))))...))))((((((...(((((..............)))))..))))))..... (-25.84) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 834 110 61 201 152 smit:SMT_1042|5end_hypothetical_cytosolic_protein_984972..985202_NEGATIVE 270 44 1 210 165 smit:SMT_365|5end_hypothetical_protein_301485..301715_POSITIVE 270 50 5 155 97 smit:SMT_242|5end_PTS_system,_mannose-specific_IID_component_180074..180304_NEGATIVE 259 49 5 149 98 smit:SMT_1715|5end_MccC_family_protein_1702174..1702404_POSITIVE 258 111 76 186 153 smit:SMT_1217|5end_hypothetical_protein_1176603..1176833_NEGATIVE 254 57 14 119 75 smit:SMT_895|5end_cysteinyl-tRNA_synthetase_843037..843267_NEGATIVE 254 57 14 119 75 smit:SMT_383|5end_cysteinyl-tRNA_synthetase_318689..318919_POSITIVE 248 107 74 144 116 smit:SMT_1513|5end_hypothetical_protein_1495582..1495812_NEGATIVE 240 107 69 148 101 smit:SMT_236|5end_ribosomal_small_subunit_pseudouridine_synthase_A_174625..174855_POSITIVE 237 103 66 148 117 smit:SMT_1667|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1657567..1657797_NEGATIVE 235 130 88 125 82 smit:SMT_745|5end_glycosyl_transferase,_group_1_family_protein_650387..650617_NEGATIVE 233 106 61 113 57 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 233 100 54 149 105 smit:SMT_91|5end_hypothetical_protein_22578..22808_POSITIVE 232 110 61 230 177 smit:SMT_970|5end_threonyl-tRNA_synthetase_915772..916002_POSITIVE 231 63 21 177 126 smit:SMT_603|5end_hypothetical_protein_517961..518191_POSITIVE 226 49 1 144 96 smit:SMT_391|5end_PTS_system,_galactose-specific_IIC_component_322647..322877_POSITIVE 223 98 53 53 8 smit:SMT_298|5end_penicillin-binding_protein_1A_242902..243132_NEGATIVE 222 49 2 141 97 smit:SMT_1344|5end_oligoendopeptidase_F_1322798..1323028_NEGATIVE 221 119 84 182 148 smit:SMT_1318|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1283511..1283741_POSITIVE 220 130 86 139 96 smit:SMT_705|5end_hypothetical_protein_615336..615566_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 295 116 77 42 1 smit:SMT_1084|3end_hypothetical_protein_1021326..1021476_NEGATIVE 288 110 64 76 25 smit:SMT_2061|3end_K02011_iron(III)_transport_system_permease_protein_1970802..1970952_POSITIVE 288 110 64 76 25 smit:SMT_202|3end_K02011_iron(III)_transport_system_permease_protein_132173..132323_NEGATIVE 270 50 5 140 82 smit:SMT_243|3end_PTS_system,_mannose-specific_IIC_component_180089..180239_NEGATIVE 268 108 65 97 53 smit:SMT_1304|3end_hypothetical_protein_1268137..1268287_POSITIVE 258 111 76 101 68 smit:SMT_1218|3end_DNA_polymerase_I_1176688..1176838_NEGATIVE 250 113 72 99 59 smit:SMT_364|3end_ribosome-binding_factor_A_301353..301503_POSITIVE 249 64 29 41 12 smit:SMT_896|3end_hypothetical_protein_843119..843269_NEGATIVE 249 106 75 75 43 smit:SMT_631|3end_glycerate_kinase_537307..537457_POSITIVE 237 103 66 92 61 smit:SMT_1668|3end_K+_transport_system,_NAD-binding_component_1657623..1657773_NEGATIVE 235 130 88 135 92 smit:SMT_746|3end_LPS_biosynthesis_protein_650377..650527_NEGATIVE 233 106 61 111 55 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 233 100 54 84 40 smit:SMT_90|3end_DNA_polymerase_III_beta_subunit_22593..22743_POSITIVE 231 63 21 100 49 smit:SMT_602|3end_5'-methylthioadenosine_nucleosidase_/_S-adenosylhomocysteine_nucleosidase_517964..518114_POSITIVE 227 90 41 111 54 smit:SMT_886|3end_single-stranded-DNA-specific_exonuclease_RecJ_832599..832749_NEGATIVE 226 49 1 96 48 smit:SMT_390|3end_PTS_system,_galactitol-specific_IIB_component,_putative_322679..322829_POSITIVE 223 98 53 56 11 smit:SMT_299|3end_recombination_protein_U_242899..243049_NEGATIVE 222 49 2 122 78 smit:SMT_1345|3end_K06198_competence_protein_CoiA_1322817..1322967_NEGATIVE 219 105 61 85 37 smit:SMT_1170|3end_acetyltransferase,_CysE/LacA/LpxA/NodL_family_1117569..1117719_NEGATIVE 216 49 2 74 28 smit:SMT_1743|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1725058..1725208_NEGATIVE