Origin IGS: tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg .........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 cactcctccttcttacgttgtggaaccgttcccttatttatatagtaagcgttttcttttattttgtcaatacttttttagaaatattttaaatttatttcagagtacacatgtttttactaatatcctattactattagatacgaaacacaacaagacctccactatattgaggaggccttggatcagctaggttatttagtaaaaga Mask Tandem Repeat Region ================================================ tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg Find is-nt database================================================ Query_seq: SMT_1573:SMT_1574|SMT_1573:SMT_1574:MutT/NUDIX family protein:K02529 LacI family transcriptional regulator:->->:1567021..1567229 209 tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1573:SMT_1574|SMT_1573:SMT_1574:MutT/NUDIX family protein:K02529 LacI family transcriptional regulator:->->:1567021..1567229 209 tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1573:SMT_1574|SMT_1573:SMT_1574:MutT/NUDIX family protein:K02529 LacI family transcriptional regulator:->->:1567021..1567229 209 tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg Predict ORF larger than 30AA ================================================ Protein_Len: 57 Strand: - Start: 20 End: 190 ................... S I W P R R L I T S T K N H K T D L L L L I N T F V H T S Q F L N L I N R F F Y Q C F L L F R K S Y L Y P F P E M ................... tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg 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: 85 Start: 139 End: 168 ..........................................................................................................................................ATTGACAAAATAAAAGAAAACGCTTACTAT......................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 46 HP_score: -3.7 Tail_Score: -3.06915 Start: 30 End: 53 Full_Region: tacgaaacacaacaa gacctccac tatatt gaggaggcc ttggatcagctaggt .............................gacctccactatattgaggaggcc............................................................................................................................................................ Find igs database================================================ Query_seq: SMT_1573:SMT_1574|SMT_1573:SMT_1574:MutT/NUDIX family protein:K02529 LacI family transcriptional regulator:->->:1567021..1567229 209 tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattagtaaaaacatgtgtactctgaaataaatttaaaatatttctaaaaaagtattgacaaaataaaagaaaacgcttactatataaataagggaacggttccacaacgtaagaaggaggagtg Intra-Species Hit: Count: 1 Min: 1 Max: 209 Len: 209 Subject: smit_SMT_1573_SMT_1574|MutT/NUDIX family protein:K02529 LacI family transcriptional regulator|POSITIVE:POSITIVE|[1567021,1567229]|209 HSP 1 e-value: 5.0E-44 bit: 178.0 Len: 90 Query Start:1 Query End:90 Subject Strand: POSITIVE Subject Start: 1 Subject End: 90 tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattag....................................................................................................................... tcttttactaaataacctagctgatccaaggcctcctcaatatagtggaggtcttgttgtgtttcgtatctaatagtaataggatattag....................................................................................................................... HSP 2 e-value: 5.0E-10 bit: 65.9 Len: 33 Query Start:177 Query End:209 Subject Strand: POSITIVE Subject Start: 177 Subject End: 209 ................................................................................................................................................................................gggaacggttccacaacgtaagaaggaggagtg ................................................................................................................................................................................gggaacggttccacaacgtaagaaggaggagtg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUUACUAAAUAACCUAGCUGAUCCAAGGCCUCCUCAAUAUAGUGGAGGUCUUGUUGUGUUUCGUAUCUAAUAGUAAUAGGAUAUUAGUAAAAACAUGUGUACUCUGAAAUAAAUUUAAAAUAUUUCUAAAAAAGUAUUGACAAAAUAAAAGAAAACGCUUACUAUAUAAAUAAGGGAACGGUUCCACAACGUAAGAAGGAGGAGUG ...................(((..(((.((((((((.(......).)))))))).((((((..((((.(((..((....))......((((((......((((..(((.............(((((((......)))))))...........)))..)))))))))).........))).))))...)))))).......)))..))). (-40.65) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CACUCCUCCUUCUUACGUUGUGGAACCGUUCCCUUAUUUAUAUAGUAAGCGUUUUCUUUUAUUUUGUCAAUACUUUUUUAGAAAUAUUUUAAAUUUAUUUCAGAGUACACAUGUUUUUACUAAUAUCCUAUUACUAUUAGAUACGAAACACAACAAGACCUCCACUAUAUUGAGGAGGCCUUGGAUCAGCUAGGUUAUUUAGUAAAAGA .((((.........(((..((((((..(..(.((((((.....)))))).)..)..))))))..))).............((((((.........)))))).)))).......((((((((((...((((...(.....).............((((.(((((.(......).))))).)))).......))))....)))))))))). (-36.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 70 25 51 12 smit:SMT_1619|5end_K02006_cobalt_transport_system_ATP-binding_protein_1606526..1606756_NEGATIVE 327 50 19 191 157 smit:SMT_725|5end_hypothetical_protein_630415..630645_NEGATIVE 294 64 21 211 168 smit:SMT_574|5end_PTS_system,_fructose_specific_IIABC_components_491884..492114_POSITIVE 291 49 1 147 99 smit:SMT_1202|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1164097..1164327_NEGATIVE 288 53 15 207 169 smit:SMT_1473|5end_hypothetical_protein_1454320..1454550_POSITIVE 277 70 27 73 19 smit:SMT_145|5end_hypothetical_protein_95873..96103_POSITIVE 274 53 12 218 158 smit:SMT_1757|5end_hypothetical_protein_1734809..1735039_NEGATIVE 273 68 21 193 151 smit:SMT_219|5end_phosphatidate_cytidylyltransferase_150922..151152_POSITIVE 272 57 19 186 147 smit:SMT_366|5end_hypothetical_protein_302085..302315_POSITIVE 271 78 46 188 154 smit:SMT_1009|5end_hypothetical_protein_predicted_by_Glimmer/Critica_948206..948436_POSITIVE 263 56 18 70 38 smit:SMT_1418|5end_lysine_decarboxylase_1403147..1403377_NEGATIVE 257 57 17 114 78 smit:SMT_1390|5end_hypothetical_protein_1367321..1367551_NEGATIVE 256 55 16 154 106 smit:SMT_1634|5end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1621074..1621304_POSITIVE 256 38 2 39 1 smit:SMT_308|5end_trans-2-enoyl-ACP_reductase_II_249439..249669_POSITIVE 252 78 33 47 10 smit:SMT_1119|5end_alcohol_dehydrogenase,_zinc-containing_1056292..1056522_NEGATIVE 251 64 22 131 84 smit:SMT_552|5end_DNA_polymerase_III,_gamma_and_tau_subunits_469445..469675_POSITIVE 247 60 20 106 62 smit:SMT_1928|5end_O-methyltransferase_family_protein_1869652..1869882_NEGATIVE 244 67 25 136 87 smit:SMT_890|5end_K02029_polar_amino_acid_transport_system_permease_protein_836953..837183_POSITIVE 240 78 39 202 161 smit:SMT_1462|5end_phosphate_ABC_transporter,_ATP-binding_protein,_putative_1443140..1443370_POSITIVE 237 50 7 199 158 smit:SMT_1506|5end_Cl-channel,_voltage-gated_family_protein_1489986..1490216_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 830 50 1 144 95 smit:SMT_1581|3end_transcriptional_regulator,_biotin_repressor_family_1573120..1573270_NEGATIVE 380 56 15 64 12 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 295 56 27 64 35 smit:SMT_1573|3end_MutT/NUDIX_family_protein_1566960..1567110_POSITIVE 289 68 21 63 4 smit:SMT_1953|3end_hypothetical_protein_1888107..1888257_POSITIVE 263 56 18 142 99 smit:SMT_121|3end_hypothetical_protein_74414..74564_POSITIVE 251 64 22 131 84 smit:SMT_551|3end_K07170_GAF_domain-containing_protein_469525..469675_POSITIVE 247 60 20 68 24 smit:SMT_1929|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1869690..1869840_NEGATIVE 246 60 16 86 42 smit:SMT_441|3end_L-lactate_oxidase_381279..381429_POSITIVE 244 67 25 126 77 smit:SMT_889|3end_K02029_polar_amino_acid_transport_system_permease_protein_837023..837173_POSITIVE 239 62 21 151 111 smit:SMT_1505|3end_purine-nucleoside_phosphorylase_1487805..1487955_NEGATIVE 235 53 17 66 20 smit:SMT_1008|3end_hypothetical_protein_947524..947674_NEGATIVE 233 59 17 60 7 smit:SMT_449|3end_hypothetical_protein_388219..388369_POSITIVE 233 52 15 68 26 smit:SMT_344|3end_K02503_Hit-like_protein_involved_in_cell-cycle_regulation_283564..283714_NEGATIVE 232 37 1 55 22 smit:SMT_2033|3end_hydrolase,_haloacid_dehalogenase-like_family_1946739..1946889_POSITIVE 227 60 16 59 8 smit:SMT_1891|3end_putative_dihydrolipoamide_S-acetyltransferase_1845019..1845169_POSITIVE 224 58 16 107 73 smit:SMT_1826|3end_ATP_synthase_beta_chain_1797622..1797772_POSITIVE 224 66 21 78 26 smit:SMT_108|3end_hypothetical_protein_53873..54023_POSITIVE 223 67 25 73 31 smit:SMT_1605|3end_hypothetical_protein_1595737..1595887_POSITIVE 221 59 15 151 116 smit:SMT_1082|3end_Cof_family_protein_1020877..1021027_POSITIVE 220 53 15 135 100 smit:SMT_1627|3end_hypothetical_protein_1616089..1616239_NEGATIVE