Origin IGS: catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgctattatcaccgttgtttgtctattgtgacgacctgtatccccctgtacctttgcagcagaatttatttacttaagaagatacagattataaggatgaacaacgctgtgaatattttgcaagaaggaagtatg Mask Tandem Repeat Region ================================================ catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Find is-nt database================================================ Query_seq: PG1446:PG1447|PG1446:PG1447:MATE efflux family protein:transcriptional regulator, AraC family:<-<-:1531318..1531452 135 catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1446:PG1447|PG1446:PG1447:MATE efflux family protein:transcriptional regulator, AraC family:<-<-:1531318..1531452 135 catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1446:PG1447|PG1446:PG1447:MATE efflux family protein:transcriptional regulator, AraC family:<-<-:1531318..1531452 135 catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 1 End: 117 M S G E Q L I N V A N N M R I I Q I K K L L Y I R S C L Y L P I C T T V I S M .................. catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca 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================================================ catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1446:PG1447|PG1446:PG1447:MATE efflux family protein:transcriptional regulator, AraC family:<-<-:1531318..1531452 135 catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Intra-Species Hit: Count: 1 Min: 1 Max: 135 Len: 135 Subject: NC_002950_PG1446_PG1447|MATE efflux family protein:transcriptional regulator, AraC family|NEGATIVE:NEGATIVE|[1531318,1531452]|135 HSP 1 e-value: 4.0E-71 bit: 268.0 Len: 135 Query Start:1 Query End:135 Subject Strand: POSITIVE Subject Start: 1 Subject End: 135 catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Inter-species Hit: Count: 1 Min: 1 Max: 135 Len: 135 Subject: pint_PI0394_PI0395|transcriptional regulator, AraC family:Na+-driven multidrug efflux pump|POSITIVE:POSITIVE|[360390,360527]|138 HSP 1 e-value: 4.0E-71 bit: 268.0 Len: 135 Query Start:1 Query End:135 Subject Strand: NEGATIVE Subject Start: 4 Subject End: 138 catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca catacttccttcttgcaaaatattcacagcgttgttcatccttataatctgtatcttcttaagtaaataaattctgctgcaaaggtacagggggatacaggtcgtcacaatagacaaacaacggtgataatagca Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUACUUCCUUCUUGCAAAAUAUUCACAGCGUUGUUCAUCCUUAUAAUCUGUAUCUUCUUAAGUAAAUAAAUUCUGCUGCAAAGGUACAGGGGGAUACAGGUCGUCACAAUAGACAAACAACGGUGAUAAUAGCA .............(((.......((((..(((((((.(((((.....((((((((((....((((.........))))...))))))))))))))).......(((......))).))))))))))).....))) (-29.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUAUUAUCACCGUUGUUUGUCUAUUGUGACGACCUGUAUCCCCCUGUACCUUUGCAGCAGAAUUUAUUUACUUAAGAAGAUACAGAUUAUAAGGAUGAACAACGCUGUGAAUAUUUUGCAAGAAGGAAGUAUG (((...(((((((((((((..(((.((((((....(((((((...(((((....))))).....((((......))))..))))))).)))))))))..)))))))..))).)))....)))............. (-32.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 949 120 71 211 162 NC_002950:PG1446|5end_MATE_efflux_family_protein_1531227..1531457_NEGATIVE 949 120 71 172 123 NC_002950:PG0827|5end_MATE_efflux_family_protein_884166..884396_POSITIVE 303 88 45 170 124 NC_002950:PG1288|5end_GDP-mannose_4,6-dehydratase_1365963..1366193_POSITIVE 287 103 72 121 87 NC_002950:PG1103|5end_ATPase,_AAA_family_1173605..1173835_POSITIVE 286 41 5 150 108 NC_002950:PG1162|5end_ATP:cob(I)alamin_adenosyltransferase,_putative_1242039..1242269_NEGATIVE 284 110 72 146 102 NC_002950:PG1554|5end_hypothetical_protein_1635264..1635494_POSITIVE 284 118 74 65 29 NC_002950:PG1333|5end_hypothetical_protein_1415425..1415655_NEGATIVE 275 105 78 126 98 NC_002950:PG1487|5end_hypothetical_protein_1561468..1561698_POSITIVE 275 115 71 65 20 NC_002950:PG1426|5end_hypothetical_protein_1511310..1511540_NEGATIVE 274 114 72 176 128 NC_002950:PG2034|5end_oxidoreductase,_FAD-binding,_putative_2135701..2135931_NEGATIVE 273 115 73 226 192 NC_002950:PG0052|5end_sensor_histidine_kinase_63419..63649_POSITIVE 272 106 71 81 45 NC_002950:PG1296|5end_hypothetical_protein_1374794..1375024_POSITIVE 272 106 75 231 196 NC_002950:PG1276|5end_DNA-binding_protein,_histone-like_family_1352945..1353175_POSITIVE 272 115 71 184 130 NC_002950:PG1101|5end_sodium:solute_symporter_family_protein_1170469..1170699_NEGATIVE 272 106 75 231 196 NC_002950:PG0566|5end_DNA-binding_protein,_histone-like_family_623441..623671_NEGATIVE 269 107 75 60 29 NC_002950:PG2174|5end_hypothetical_protein_2282578..2282808_NEGATIVE 267 107 71 159 121 NC_002950:PG2002|5end_dihydrodipicolinate_reductase_2091587..2091817_NEGATIVE 266 107 73 36 3 NC_002950:PG1743|5end_2-dehydro-3-deoxyphosphooctonate_aldolase_1828348..1828578_NEGATIVE 265 106 72 44 15 NC_002950:PG0291|5end_hypothetical_protein_325457..325687_POSITIVE 264 115 73 65 22 NC_002950:PG0493|5end_hypothetical_protein_534900..535130_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 949 120 71 75 26 NC_002950:PG0826|3end_transcriptional_regulator,_AraC_family_884149..884299_POSITIVE 323 114 74 111 60 NC_002950:PG1972|3end_hemagglutinin_protein_HagB_2061203..2061353_POSITIVE 286 41 5 127 85 NC_002950:PG1163|3end_cobyrinic_acid_a,c-diamide_synthase_1242062..1242212_NEGATIVE 284 110 72 149 105 NC_002950:PG1553|3end_CobN/magnesium_chelatase_family_protein_1635347..1635497_POSITIVE 284 118 74 68 32 NC_002950:PG1334|3end_band_7/Mec-2_family_protein_1415422..1415572_NEGATIVE 270 127 87 37 4 NC_002950:PG0003|3end_hypothetical_protein_1919..2069_NEGATIVE 267 107 71 98 60 NC_002950:PG2003|3end_deoxyguanosinetriphosphate_triphosphohydrolase_2091648..2091798_NEGATIVE 265 106 72 41 12 NC_002950:PG0290|3end_hypothetical_protein_325534..325684_POSITIVE 261 103 67 63 23 NC_002950:PG0721|3end_NLP/P60_family_protein_774535..774685_POSITIVE 259 130 84 65 19 NC_002950:PG2144|3end_hypothetical_protein_2253290..2253440_POSITIVE 252 114 74 111 54 NC_002950:PG1975|3end_hemagglutinin_protein_HagC_2064350..2064500_POSITIVE 252 111 74 50 8 NC_002950:PG0141|3end_spoOJ_protein_163878..164028_NEGATIVE 251 130 88 140 106 NC_002950:PG0453|3end_hypothetical_protein_496670..496820_POSITIVE 251 109 75 87 49 NC_002950:PG0171|3end_5'-nucleotidase_family_protein_193576..193726_POSITIVE 250 115 74 44 15 NC_002950:PG1386|3end_DNA_gyrase,_A_subunit_1466369..1466519_NEGATIVE 250 106 76 138 103 NC_002950:PG0273|3end_4'-phosphopantetheinyl_transferase_family_protein_306370..306520_POSITIVE 249 106 63 46 1 NC_002950:PG1273|3end_hypothetical_protein_1351682..1351832_NEGATIVE 249 126 84 53 10 NC_002950:PG0599|3end_3,4-dihydroxy-2-butanone_4-phosphate_synthase/GTP_cyclohydrolase_II_657732..657882_POSITIVE 249 114 75 147 117 NC_002950:PG0424|3end_hypothetical_protein_463213..463363_POSITIVE 248 109 73 98 69 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE