Origin IGS: agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttatttactatttttgctgcacacaaagagtgtgattgtgcagattttctggcgctgataatggactaacacggtattttctgtgctaaatccgctaaacagcgctaaatgaagcacaaatataagtaagaagattattagtaataaccattttaaagaacaagact Mask Tandem Repeat Region ================================================ agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Find is-nt database================================================ Query_seq: PG1765:PG1766|PG1765:PG1766:acyl carrier protein:phosphoribosylglycinamide formyltransferase:<-->:1853389..1853556 168 agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1765:PG1766|PG1765:PG1766:acyl carrier protein:phosphoribosylglycinamide formyltransferase:<-->:1853389..1853556 168 agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1765:PG1766|PG1765:PG1766:acyl carrier protein:phosphoribosylglycinamide formyltransferase:<-->:1853389..1853556 168 agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 30 End: 164 ............................. M I F L L I F V L H L A L F S G F S T E N T V L V H Y Q R Q K I C T I T L F V C S K N S K * .... agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa 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================================================ agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1765:PG1766|PG1765:PG1766:acyl carrier protein:phosphoribosylglycinamide formyltransferase:<-->:1853389..1853556 168 agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Intra-Species Hit: Count: 1 Min: 1 Max: 168 Len: 168 Subject: NC_002950_PG1765_PG1766|acyl carrier protein:phosphoribosylglycinamide formyltransferase|NEGATIVE:POSITIVE|[1853389, 1853556]|168 HSP 1 e-value: 1.0E-90 bit: 333.0 Len: 168 Query Start:1 Query End:168 Subject Strand: POSITIVE Subject Start: 1 Subject End: 168 agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa agtcttgttctttaaaatggttattactaataatcttcttacttatatttgtgcttcatttagcgctgtttagcggatttagcacagaaaataccgtgttagtccattatcagcgccagaaaatctgcacaatcacactctttgtgtgcagcaaaaatagtaaataaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUCUUGUUCUUUAAAAUGGUUAUUACUAAUAAUCUUCUUACUUAUAUUUGUGCUUCAUUUAGCGCUGUUUAGCGGAUUUAGCACAGAAAAUACCGUGUUAGUCCAUUAUCAGCGCCAGAAAAUCUGCACAAUCACACUCUUUGUGUGCAGCAAAAAUAGUAAAUAAA .......................((((((...................((((((....(((.((((((..(((.(((((.(((((.(......).)))))))))).))).)))))).)))......)))))).(((((.....))))).........))))))..... (-38.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUUUACUAUUUUUGCUGCACACAAAGAGUGUGAUUGUGCAGAUUUUCUGGCGCUGAUAAUGGACUAACACGGUAUUUUCUGUGCUAAAUCCGCUAAACAGCGCUAAAUGAAGCACAAAUAUAAGUAAGAAGAUUAUUAGUAAUAACCAUUUUAAAGAACAAGACU .....((((((((((((((.(((((.....))))).((((((...(((..((((((((.((.((((.((.(((((......))))).))..)))).))..))))))))...))))))))).....))))))))......))))))....................... (-40.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 934 120 71 211 162 NC_002950:PG1765|5end_acyl_carrier_protein_1853298..1853528_NEGATIVE 335 149 102 66 15 NC_002950:PG1616|5end_hypothetical_protein_1697250..1697480_NEGATIVE 323 100 53 190 145 NC_002950:PG2187|5end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_2294643..2294873_NEGATIVE 293 100 51 174 127 NC_002950:PG0715|5end_transporter_769596..769826_NEGATIVE 289 96 63 170 139 NC_002950:PG0156|5end_modification_methylase,_HemK_family_178828..179058_POSITIVE 285 120 74 53 2 NC_002950:PG1407|5end_nitroimidazole_resistance_protein,_putative_1491648..1491878_NEGATIVE 284 150 101 139 92 NC_002950:PG1351|5end_hypothetical_protein_1432744..1432974_NEGATIVE 284 87 46 70 21 NC_002950:PG0968|5end_Mrr_restriction_system_protein_1026828..1027058_POSITIVE 277 119 74 198 144 NC_002950:PG1640|5end_DNA-damage-inducible_protein_F_1721245..1721475_NEGATIVE 271 105 63 216 176 NC_002950:PG1209|5end_hypothetical_protein_1287445..1287675_POSITIVE 267 153 111 223 181 NC_002950:PG0362|5end_hypothetical_protein_395301..395531_POSITIVE 266 153 111 110 74 NC_002950:PG0979|5end_hypothetical_protein_1040752..1040982_POSITIVE 265 149 101 186 139 NC_002950:PG1034|5end_ABC_transporter,_ATP-binding_protein_1096163..1096393_POSITIVE 264 148 101 104 47 NC_002950:PG1564|5end_hypothetical_protein_1644536..1644766_NEGATIVE 263 151 111 49 22 NC_002950:PG2126|5end_conserved_hypothetical_protein_TIGR00044_2233112..2233342_NEGATIVE 263 114 72 86 39 NC_002950:PG1355|5end_acyltransferase,_putative_1435292..1435522_NEGATIVE 263 118 71 220 173 NC_002950:PG0193|5end_cationic_outer_membrane_protein_OmpH_230149..230379_POSITIVE 261 116 72 70 20 NC_002950:PG1473|5end_conjugative_transposon_protein_TraQ_1550225..1550455_NEGATIVE 260 153 113 66 9 NC_002950:PG1479|5end_conjugative_transposon_protein_TraJ_1555234..1555464_NEGATIVE 260 129 94 194 152 NC_002950:PG0635|5end_ribosomal_protein_L11_methyltransferase_687773..688003_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 88 53 101 57 NC_002950:PG0572|3end_hypothetical_protein_627434..627584_NEGATIVE 284 150 101 146 99 NC_002950:PG1352|3end_hypothetical_protein_1432737..1432887_NEGATIVE 282 86 48 151 117 NC_002950:PG1584|3end_batC_protein_1662154..1662304_POSITIVE 266 153 111 140 104 NC_002950:PG0978|3end_shikimate_5-dehydrogenase_1040862..1041012_POSITIVE 263 151 111 52 25 NC_002950:PG2127|3end_hypothetical_protein_2233109..2233259_NEGATIVE 261 120 74 59 15 NC_002950:PG1574|3end_hypothetical_protein_1652461..1652611_NEGATIVE 261 116 72 57 7 NC_002950:PG1474|3end_conjugative_transposon_protein_TraO_1550238..1550388_NEGATIVE 257 117 71 54 8 NC_002950:PG1195|3end_8-amino-7-oxononanoate_synthase_1275207..1275357_POSITIVE 256 103 62 72 29 NC_002950:PG1485|3end_conjugative_transposon_protein_TraC_1559984..1560134_NEGATIVE 252 99 51 137 81 NC_002950:PG2003|3end_deoxyguanosinetriphosphate_triphosphohydrolase_2091648..2091798_NEGATIVE 252 149 101 83 36 NC_002950:PG1895|3end_hypothetical_protein_1994240..1994390_POSITIVE 252 106 62 74 28 NC_002950:PG1366|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1446076..1446226_NEGATIVE 251 78 34 64 9 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE 247 152 111 59 10 NC_002950:PG1918|3end_preprotein_translocase_SecY_2014490..2014640_NEGATIVE 245 140 95 151 94 NC_002950:PG0985|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1047516..1047666_POSITIVE 245 140 93 80 23 NC_002950:PG0906|3end_lipoprotein,_putative_971148..971298_POSITIVE 242 104 65 120 83 NC_002950:PG1379|3end_ABC_transporter,_periplasmic_substrate-binding_protein,_putative_1459955..1460105_POSITIVE 241 114 72 85 41 NC_002950:PG0274|3end_hypothetical_protein_306781..306931_POSITIVE 240 152 111 60 19 NC_002950:PG2212|3end_hypothetical_protein_2324483..2324633_NEGATIVE 240 98 53 83 37 NC_002950:PG1950|3end_hypothetical_protein_2040840..2040990_POSITIVE