Origin IGS: taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cagcgtgcttttacccacgttggggttgcctactatgtttacaaatccagctttgtgcatatctttgaattaaaaaacgcacctatctttgtttgcaaagaaagatgcgttaatcttttgttatatacgaactaagaatttta Mask Tandem Repeat Region ================================================ taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Find is-nt database================================================ Query_seq: PI1705:PI1706|PI1705:PI1706:3-oxoacyl-(acyl-carrier-protein) synthase III:GTP-binding protein:->->:1622767..1622909 143 taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1705:PI1706|PI1705:PI1706:3-oxoacyl-(acyl-carrier-protein) synthase III:GTP-binding protein:->->:1622767..1622909 143 taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1705:PI1706|PI1705:PI1706:3-oxoacyl-(acyl-carrier-protein) synthase III:GTP-binding protein:->->:1622767..1622909 143 taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Predict ORF larger than 30AA ================================================ taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg 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================================================ taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -12.4 Tail_Score: -5.26875 Start: 35 End: 66 Full_Region: ATAACAAAAGATTAA CGCATCTTTCTTTG CAAA CAAAGATAGGTGCG TTTTTTAATTCAAAG ..................................CGCATCTTTCTTTGCAAACAAAGATAGGTGCG............................................................................. TransTerm Strand: - Conf: 85 HP_score: -10.2 Tail_Score: -3.6201 Start: 35 End: 66 Full_Region: ctttgaattaaaaaa cgcacctatctttg tttg caaagaaagatgcg ttaatcttttgttat ..................................cgcacctatctttgtttgcaaagaaagatgcg............................................................................. Find igs database================================================ Query_seq: PI1705:PI1706|PI1705:PI1706:3-oxoacyl-(acyl-carrier-protein) synthase III:GTP-binding protein:->->:1622767..1622909 143 taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Intra-Species Hit: Count: 1 Min: 1 Max: 143 Len: 143 Subject: pint_PI1705_PI1706|3-oxoacyl-(acyl-carrier-protein) synthase III:GTP-binding protein|POSITIVE:POSITIVE|[1622767,1622909]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg taaaattcttagttcgtatataacaaaagattaacgcatctttctttgcaaacaaagataggtgcgttttttaattcaaagatatgcacaaagctggatttgtaaacatagtaggcaaccccaacgtgggtaaaagcacgctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUCUUAGUUCGUAUAUAACAAAAGAUUAACGCAUCUUUCUUUGCAAACAAAGAUAGGUGCGUUUUUUAAUUCAAAGAUAUGCACAAAGCUGGAUUUGUAAACAUAGUAGGCAACCCCAACGUGGGUAAAAGCACGCUG ..((((((..((((.((((((.......((..(((((((((.((((((....)))))).)))))))))..)).........))))))....)))))))))).......((((..((.((((......))))....))..)))) (-33.69) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGCGUGCUUUUACCCACGUUGGGGUUGCCUACUAUGUUUACAAAUCCAGCUUUGUGCAUAUCUUUGAAUUAAAAAACGCACCUAUCUUUGUUUGCAAAGAAAGAUGCGUUAAUCUUUUGUUAUAUACGAACUAAGAAUUUUA (((((((........)))))))...........(((((..(((((......))))))))))..............((((((.((.((((((....)))))).)).))))))..((((((((.....))))...))))...... (-30.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 130 81 210 158 pint:PI2112|5end_phosphopantetheine_adenylyltransferase_2063194..2063424_POSITIVE 279 130 81 164 110 pint:PI1605|5end_conserved_hypothetical_protein_1534244..1534474_POSITIVE 278 139 92 227 180 pint:PI0395|5end_Na+-driven_multidrug_efflux_pump_360388..360618_POSITIVE 275 139 110 61 26 pint:PI0455|5end_hypothetical_protein_427361..427591_POSITIVE 266 97 56 65 20 pint:PI1407|5end_conserved_hypothetical_protein_1327693..1327923_POSITIVE 266 140 115 54 28 pint:PI0581|5end_conserved_hypothetical_protein_525055..525285_POSITIVE 266 63 22 100 47 pint:PI0090|5end_amidophosphoribosyltransferase_88379..88609_POSITIVE 262 70 39 175 139 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 261 79 33 80 27 pint:PI0178|5end_2-oxoglutarate_synthase,_subunit_korA_169524..169754_POSITIVE 260 126 81 109 47 pint:PI0829|5end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_765665..765895_POSITIVE 247 137 94 78 30 pint:PI1951|5end_ABC_transporter,_ATP-binding_protein_1905823..1906053_POSITIVE 246 130 84 180 138 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 245 136 95 117 76 pint:PI1456|5end_conserved_hypothetical_protein_1378864..1379094_POSITIVE 245 116 75 75 35 pint:PI0347|5end_hypothetical_protein_321267..321497_POSITIVE 239 130 81 68 16 pint:PI0955|5end_conserved_hypothetical_protein_884736..884966_POSITIVE 237 140 96 59 3 pint:PI1617|5end_hypothetical_protein_1542923..1543153_POSITIVE 235 89 44 195 153 pint:PI2053|5end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2010673..2010903_POSITIVE 235 137 109 43 16 pint:PI1723|5end_conserved_hypothetical_protein_1641649..1641879_POSITIVE 235 62 29 43 13 pint:PI0546|5end_hypothetical_protein_497799..498029_POSITIVE 234 140 91 215 171 pint:PI2029|5end_DNA_topoisomerase_I_1982775..1983005_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 68 33 58 23 pint:PI1705|3end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1622706..1622856_POSITIVE 301 139 95 89 52 pint:PI1395|3end_hypothetical_protein_1314407..1314557_POSITIVE 278 139 92 88 41 pint:PI0394|3end_transcriptional_regulator,_AraC_family_360329..360479_POSITIVE 266 140 115 133 107 pint:PI0582|3end_hypothetical_protein_525214..525364_POSITIVE 262 70 39 46 10 pint:PI0814|3end_conserved_hypothetical_protein_754426..754576_POSITIVE 261 79 33 59 6 pint:PI0177|3end_2-oxoglutarate_synthase,_subunit_korB_169583..169733_POSITIVE 256 139 95 106 56 pint:PI2147|3end_GTP-binding_protein_2094407..2094557_POSITIVE 247 137 94 63 15 pint:PI1950|3end_iron-regulated_membrane_permease_1905888..1906038_POSITIVE 245 136 95 136 95 pint:PI1455|3end_hypothetical_protein_1378963..1379113_POSITIVE 245 116 75 58 18 pint:PI0346|3end_hypothetical_protein_321330..321480_POSITIVE 235 62 29 31 1 pint:PI0545|3end_sugar_kinase_497867..498017_POSITIVE 232 140 93 145 97 pint:PI1343|3end_conserved_hypothetical_protein_1258539..1258689_POSITIVE 230 130 85 134 77 pint:PI2025|3end_conserved_hypothetical_protein_1979452..1979602_POSITIVE 230 60 11 74 28 pint:PI1751|3end_desulfoferrodoxin_1680280..1680430_POSITIVE 229 129 86 134 98 pint:PI1254|3end_probable_glucokinase_1176646..1176796_POSITIVE 229 138 91 76 10 pint:PI0828|3end_GMP_synthase_(glutamine_amidotransferase)_765695..765845_POSITIVE 229 137 92 64 21 pint:PI0681|3end_hypothetical_protein_619256..619406_POSITIVE 228 140 92 110 51 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 227 68 25 120 73 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 226 67 36 50 23 pint:PI1647|3end_hypothetical_protein_1562531..1562681_POSITIVE