Origin IGS: tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaccgaaatcggactgtcaaaaagcatcaaggaaaaacacaaaatatagggattgaaagcggagaaacaacgcaaaagatttaccaaagattggttgtctcgttaaa Mask Tandem Repeat Region ================================================ tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Find is-nt database================================================ Query_seq: PI0883:PI0885|PI0883:PI0885:para-aminobenzoate synthase component I:hypothetical protein:->->:817312..817419 108 tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0883:PI0885|PI0883:PI0885:para-aminobenzoate synthase component I:hypothetical protein:->->:817312..817419 108 tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0883:PI0885|PI0883:PI0885:para-aminobenzoate synthase component I:hypothetical protein:->->:817312..817419 108 tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Predict ORF larger than 30AA ================================================ tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta 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================================================ tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0883:PI0885|PI0883:PI0885:para-aminobenzoate synthase component I:hypothetical protein:->->:817312..817419 108 tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: pint_PI0883_PI0885|para-aminobenzoate synthase component I:hypothetical protein|POSITIVE:POSITIVE|[817312,817419]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta tttaacgagacaaccaatctttggtaaatcttttgcgttgtttctccgctttcaatccctatattttgtgtttttccttgatgctttttgacagtccgatttcggtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAACGAGACAACCAAUCUUUGGUAAAUCUUUUGCGUUGUUUCUCCGCUUUCAAUCCCUAUAUUUUGUGUUUUUCCUUGAUGCUUUUUGACAGUCCGAUUUCGGUUA ......(((((((((((...............))).))))))))...(((.((((............(((((.......)))))...)))).)))(((....)))... (-15.32) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCGAAAUCGGACUGUCAAAAAGCAUCAAGGAAAAACACAAAAUAUAGGGAUUGAAAGCGGAGAAACAACGCAAAAGAUUUACCAAAGAUUGGUUGUCUCGUUAAA ...(((....)))....................................(((((.....(((.........))).........((((.....)))).)))))...... (-14.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 50 6 129 81 pint:PI0916|5end_hypothetical_protein_845617..845847_POSITIVE 322 70 23 158 113 pint:PI1241|5end_probable_phosphoesterase_1166365..1166595_POSITIVE 272 50 8 122 68 pint:PI1267|5end_probable_integrase_1186105..1186335_POSITIVE 267 73 33 173 122 pint:PI2053|5end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2010673..2010903_POSITIVE 264 54 17 162 128 pint:PI0572|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_516382..516612_POSITIVE 261 53 14 231 190 pint:PI1106|5end_conserved_hypothetical_protein_1030466..1030696_POSITIVE 261 99 59 138 85 pint:PI0817|5end_glycosyl_transferase,_group_1_family_protein_756861..757091_POSITIVE 257 80 37 116 67 pint:PI1705|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1621781..1622011_POSITIVE 251 50 6 106 47 pint:PI0618|5end_acyl-CoA_dehydrogenase_family_protein_567409..567639_POSITIVE 249 70 35 212 172 pint:PI1616|5end_hypothetical_protein_1542173..1542403_POSITIVE 247 91 53 57 16 pint:PI1794|5end_conserved_hypothetical_protein_1725609..1725839_POSITIVE 245 56 19 38 4 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 244 86 46 95 54 pint:PI0959|5end_uridine_kinase_890495..890725_POSITIVE 243 79 32 66 23 pint:PI0819|5end_hypothetical_protein_759414..759644_POSITIVE 237 78 34 50 5 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 236 43 7 205 167 pint:PI1187|5end_conserved_hypothetical_protein_1106692..1106922_POSITIVE 236 88 45 104 59 pint:PI0601|5end_hypothetical_protein_548758..548988_POSITIVE 234 59 14 117 58 pint:PI1760|5end_hypothetical_protein_1684413..1684643_POSITIVE 233 59 11 66 17 pint:PI0263|5end_conjugative_transposon_protein,_TraM_255256..255486_POSITIVE 233 60 18 223 164 pint:PI0251|5end_hypothetical_protein_247551..247781_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 264 54 17 149 115 pint:PI0571|3end_conserved_hypothetical_protein;_possible_permease_516449..516599_POSITIVE 261 99 59 117 64 pint:PI0816|3end_glycogen_debranching_enzyme_756920..757070_POSITIVE 254 96 65 146 115 pint:PI0246|3end_conserved_hypothetical_protein_244599..244749_POSITIVE 251 50 6 83 24 pint:PI0617|3end_electron_transfer_flavoprotein,_alpha_subunit_567466..567616_POSITIVE 244 86 46 89 48 pint:PI0958|3end_G:T/U_mismatch-specific_DNA_glycosylase_890569..890719_POSITIVE 237 60 13 151 94 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 236 88 45 63 18 pint:PI0600|3end_bifunctional_purine_biosynthesis_protein,_5-aminoimidazole-4-carboxamide_ribonucleotide(AICAR)_transformylase/IMP_cyclohydrolase_548797..548947_POSITIVE 234 78 34 140 107 pint:PI1631|3end_hypothetical_protein_1552797..1552947_POSITIVE 233 77 31 130 79 pint:PI0745|3end_conserved_hypothetical_protein_675670..675820_POSITIVE 232 88 42 82 40 pint:PI2139|3end_cysteinyl-tRNA_synthetase_2086752..2086902_POSITIVE 232 84 47 129 84 pint:PI1514|3end_tRNA_nucleotidyltransferase/poly(A)_polymerase_1434072..1434222_POSITIVE 232 73 36 89 52 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 231 49 7 101 51 pint:PI1492|3end_triosephosphate_isomerase_1412310..1412460_POSITIVE 230 60 13 118 73 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE 228 60 12 146 97 pint:PI1669|3end_hypothetical_protein_1583805..1583955_POSITIVE 225 80 33 67 17 pint:PI2044|3end_hypothetical_protein_1997351..1997501_POSITIVE 225 58 20 144 90 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 225 58 19 53 5 pint:PI1520|3end_hypothetical_protein_1441370..1441520_POSITIVE 221 98 57 76 30 pint:PI1399|3end_hypothetical_protein_1320844..1320994_POSITIVE 221 86 46 74 38 pint:PI0728|3end_integrase_661508..661658_POSITIVE