Origin IGS: gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttagttgaagatataaaagagaaggatttatgaccttctctttttgtgatatggactatagtgagagttctgttgaaaagaagaaaaaagtgaacaaaacgatgtttcagatttgttcacttttatgttattctataaac Mask Tandem Repeat Region ================================================ gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Find is-nt database================================================ Query_seq: SMT_1219:SMT_1220|SMT_1219:SMT_1220:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1180459..1180598 140 gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1219:SMT_1220|SMT_1219:SMT_1220:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1180459..1180598 140 gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1219:SMT_1220|SMT_1219:SMT_1220:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1180459..1180598 140 gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 15 End: 110 .............. M K V N K S E T S F C S L F S S F Q Q N S H Y S P Y H K K R R S .............................. Protein_Len: 36 Strand: + Start: 31 End: 138 .............................. M K H R F V H F F L L F N R T L T I V H I T K R E G H K S F S F I S S T .. Protein_Len: 37 Strand: - Start: 1 End: 111 N I S Y C L L S C I Q F M T K N V K K K K E V S S E S Y D M D C F S F T M ............................. gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa 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================================================ gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 80 HP_score: -6.3 Tail_Score: -4.82162 Start: 21 End: 51 Full_Region: gaaaagaagaaaaaa gtgaacaaaacga tgtt tcagatttgttcac ttttatgttattcta ....................gtgaacaaaacgatgtttcagatttgttcac......................................................................................... TransTerm Strand: + Conf: 75 HP_score: -5.9 Tail_Score: -4.67943 Start: 101 End: 122 Full_Region: TCCATATCACAAAAA GAGAAGG TCATAAAT CCTTCTC TTTTATATCTTCAAC ....................................................................................................GAGAAGGTCATAAATCCTTCTC.................. Find igs database================================================ Query_seq: SMT_1219:SMT_1220|SMT_1219:SMT_1220:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1180459..1180598 140 gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Intra-Species Hit: Count: 1 Min: 1 Max: 140 Len: 140 Subject: smit_SMT_1219_SMT_1220|hypothetical protein:hypothetical protein predicted by Glimmer/Critica|POSITIVE:NEGATIVE|[1180459,1180598]|140 HSP 1 e-value: 5.0E-74 bit: 278.0 Len: 140 Query Start:1 Query End:140 Subject Strand: POSITIVE Subject Start: 1 Subject End: 140 gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa gtttatagaataacataaaagtgaacaaatctgaaacatcgttttgttcacttttttcttcttttcaacagaactctcactatagtccatatcacaaaaagagaaggtcataaatccttctcttttatatcttcaactaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUAUAGAAUAACAUAAAAGUGAACAAAUCUGAAACAUCGUUUUGUUCACUUUUUUCUUCUUUUCAACAGAACUCUCACUAUAGUCCAUAUCACAAAAAGAGAAGGUCAUAAAUCCUUCUCUUUUAUAUCUUCAACUAA ..((((((........(((((((((((((..(((....))).)))))))))))))...((((.......))))......))))))...........(((((((((((........))))))))))).............. (-31.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGUUGAAGAUAUAAAAGAGAAGGAUUUAUGACCUUCUCUUUUUGUGAUAUGGACUAUAGUGAGAGUUCUGUUGAAAAGAAGAAAAAAGUGAACAAAACGAUGUUUCAGAUUUGUUCACUUUUAUGUUAUUCUAUAAAC .(((((.(.(.((((((((((((((........))))))).))))))).).).))))).....((((((((.((....)).))).(((((((((((((.(((....)).).))))))))))))).....)))))...... (-34.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 66 26 106 59 smit:SMT_590|5end_tetratricopeptide_repeat_family_protein_506737..506967_POSITIVE 262 107 61 147 98 smit:SMT_1560|5end_DNA_polymerase_III_alpha_subunit_1548612..1548842_NEGATIVE 242 81 45 126 85 smit:SMT_1077|5end_GTP_cyclohydrolase_I_1015410..1015640_NEGATIVE 240 118 74 150 98 smit:SMT_1087|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_1024165..1024395_NEGATIVE 228 134 94 213 180 smit:SMT_431|5end_UDP-N-acetylmuramoyl-L-alanyl-D-glutamate_synthetase_372199..372429_POSITIVE 225 79 31 208 152 smit:SMT_1343|5end_O-methyltransferase_1320994..1321224_NEGATIVE 224 75 39 120 77 smit:SMT_2050|5end_K03712_MarR_family_transcriptional_regulator_1959973..1960203_NEGATIVE 224 90 44 58 10 smit:SMT_1575|5end_ribokinase_1568064..1568294_POSITIVE 222 120 73 138 98 smit:SMT_1513|5end_hypothetical_protein_1495582..1495812_NEGATIVE 222 70 29 63 20 smit:SMT_1333|5end_glycosyltransferase_1308635..1308865_NEGATIVE 221 70 29 110 59 smit:SMT_815|5end_hypothetical_protein_724294..724524_NEGATIVE 220 135 93 221 180 smit:SMT_102|5end_competence-specific_global_transcription_modulator_34108..34338_POSITIVE 219 64 31 105 66 smit:SMT_274|5end_ABC_transporter_substrate-binding_protein_-_oligopeptide_transport_215221..215451_POSITIVE 218 125 89 148 120 smit:SMT_1667|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1657567..1657797_NEGATIVE 217 110 62 90 58 smit:SMT_1669|5end_potassium_uptake_protein_KtrB_1658577..1658807_NEGATIVE 216 90 44 139 91 smit:SMT_1258|5end_acetolactate_synthase_large_subunit_1224866..1225096_NEGATIVE 216 119 71 52 10 smit:SMT_783|5end_K03710_GntR_family_transcriptional_regulator_694611..694841_POSITIVE 215 107 64 136 87 smit:SMT_651|5end_DNA_ligase_561944..562174_NEGATIVE 211 110 70 56 7 smit:SMT_657|5end_Kef-type_K+_transport_system,_predicted_NAD-binding_component_569104..569334_NEGATIVE 209 133 102 109 74 smit:SMT_2036|5end_spermidine_synthase_1947879..1948109_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 66 26 116 69 smit:SMT_589|3end_hypothetical_protein_506827..506977_POSITIVE 277 126 89 84 46 smit:SMT_687|3end_carbamoyl-phosphate_synthase,_large_subunit_596088..596238_NEGATIVE 242 81 45 145 104 smit:SMT_1078|3end_folylpolyglutamate_synthase_1015391..1015541_NEGATIVE 240 78 33 108 62 smit:SMT_1170|3end_acetyltransferase,_CysE/LacA/LpxA/NodL_family_1117569..1117719_NEGATIVE 234 126 96 57 27 smit:SMT_686|3end_LPS_biosynthesis_protein_596048..596198_POSITIVE 228 134 94 98 65 smit:SMT_430|3end_hypothetical_protein_372164..372314_POSITIVE 224 90 44 58 10 smit:SMT_1574|3end_K02529_LacI_family_transcriptional_regulator_1568144..1568294_POSITIVE 221 70 29 62 11 smit:SMT_816|3end_SWF/SNF_family_helicase_724342..724492_NEGATIVE 220 135 93 100 59 smit:SMT_101|3end_cell_division_protein_34067..34217_POSITIVE 218 125 89 92 64 smit:SMT_1668|3end_K+_transport_system,_NAD-binding_component_1657623..1657773_NEGATIVE 209 133 102 108 73 smit:SMT_2037|3end_lysine_decarboxylase_1947880..1948030_NEGATIVE 209 133 102 108 73 smit:SMT_1418|3end_lysine_decarboxylase_1401687..1401837_NEGATIVE 208 135 91 145 94 smit:SMT_1889|3end_hypothetical_protein_1843467..1843617_POSITIVE 208 55 17 74 36 smit:SMT_1219|3end_hypothetical_protein_1180398..1180548_POSITIVE 205 70 21 113 57 smit:SMT_1733|3end_DNA_repair_protein_RecN_1718636..1718786_POSITIVE 201 50 8 90 48 smit:SMT_1277|3end_PcsB_protein_1241327..1241477_POSITIVE 201 128 90 102 49 smit:SMT_977|3end_conserved_hypothetical_protein,_Rrf2_family_protein_925252..925402_NEGATIVE 197 139 94 77 27 smit:SMT_1637|3end_hypothetical_protein_1623848..1623998_POSITIVE 196 68 26 98 45 smit:SMT_1669|3end_potassium_uptake_protein_KtrB_1658302..1658452_NEGATIVE 196 133 104 70 38 smit:SMT_1402|3end_pyruvate_dehydrogenase_E2_component_(dihydrolipoamide_acetyltransferase)_1379238..1379388_POSITIVE