Origin IGS: ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctatagtttgcaaattcgagaaataaatattatctttgcacgtgagaaatgctgttatgcgcatatatgaagaaaatgtgttttaccattagcattatcttagtatgaaataatttagcaaataaag Mask Tandem Repeat Region ================================================ ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Find is-nt database================================================ Query_seq: PI1087:PI1088|PI1087:PI1088:conserved hypothetical protein:conserved hypothetical protein:->->:1011618..1011745 128 ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1087:PI1088|PI1087:PI1088:conserved hypothetical protein:conserved hypothetical protein:->->:1011618..1011745 128 ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1087:PI1088|PI1087:PI1088:conserved hypothetical protein:conserved hypothetical protein:->->:1011618..1011745 128 ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Predict ORF larger than 30AA ================================================ ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 92 End: 121 ...........................................................................................TTTGCAAATTCGAGAAATAAATATTATCTT....... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1087:PI1088|PI1087:PI1088:conserved hypothetical protein:conserved hypothetical protein:->->:1011618..1011745 128 ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: pint_PI1087_PI1088|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1011618,1011745]|128 HSP 1 e-value: 6.0E-67 bit: 254.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga ctttatttgctaaattatttcatactaagataatgctaatggtaaaacacattttcttcatatatgcgcataacagcatttctcacgtgcaaagataatatttatttctcgaatttgcaaactataga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUAUUUGCUAAAUUAUUUCAUACUAAGAUAAUGCUAAUGGUAAAACACAUUUUCUUCAUAUAUGCGCAUAACAGCAUUUCUCACGUGCAAAGAUAAUAUUUAUUUCUCGAAUUUGCAAACUAUAGA .....(((((.(((((.....(((..((((.((((....((......)))))).))))..))).(((((.................)))))....................))))))))))....... (-13.53) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAUAGUUUGCAAAUUCGAGAAAUAAAUAUUAUCUUUGCACGUGAGAAAUGCUGUUAUGCGCAUAUAUGAAGAAAAUGUGUUUUACCAUUAGCAUUAUCUUAGUAUGAAAUAAUUUAGCAAAUAAAG ......((((((.......(....)....(((((.(((..((.((((((((((((....((((((...........))))))........))))))).)))))))..))))))))...)))))).... (-20.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 283 97 64 59 16 pint:PI1574|5end_conserved_hypothetical_protein_1500325..1500555_POSITIVE 270 87 41 204 168 pint:PI0242|5end_hypothetical_protein_240007..240237_POSITIVE 260 75 33 121 88 pint:PI0185|5end_conserved_hypothetical_protein_176992..177222_POSITIVE 234 44 1 106 62 pint:PI0862|5end_polysaccharide_export_outer_membrane_protein_798269..798499_POSITIVE 231 83 46 137 107 pint:PI1090|5end_tRNA_uracil_5-methyltransferase_1014366..1014596_POSITIVE 227 87 51 55 3 pint:PI0473|5end_30S_ribosomal_protein_S14_438634..438864_POSITIVE 226 89 52 50 17 pint:PI0240|5end_conserved_hypothetical_protein_238462..238692_POSITIVE 224 99 67 69 29 pint:PI1823|5end_inorganic_polyphosphate/ATP-NAD_kinase_(Poly(P)/ATP_NAD_kinase)_1763238..1763468_POSITIVE 224 120 77 207 162 pint:PI0329|5end_hypothetical_protein_310066..310296_POSITIVE 223 95 56 66 38 pint:PI0434|5end_possible_beta-lactamase_405692..405922_POSITIVE 218 79 34 201 161 pint:PI2169|5end_hypothetical_protein_2111706..2111936_POSITIVE 218 79 34 85 45 pint:PI2167|5end_hypothetical_protein_2111590..2111820_POSITIVE 218 108 64 55 19 pint:PI1401|5end_TPR-repeat-containing_protein_1322027..1322257_POSITIVE 217 89 49 66 21 pint:PI0955|5end_conserved_hypothetical_protein_884736..884966_POSITIVE 217 98 52 91 36 pint:PI0649|5end_oxaloacetate_decarboxylase_589695..589925_POSITIVE 216 100 52 166 108 pint:PI0852|5end_conserved_hypothetical_protein_784552..784782_POSITIVE 215 102 65 50 14 pint:PI0914|5end_ATPase,_AAA_family_843662..843892_POSITIVE 215 76 36 178 136 pint:PI0694|5end_Na+/dicarboxylate_or_sulfate_symporter_629745..629975_POSITIVE 212 107 65 93 62 pint:PI1875|5end_hypothetical_protein_1818934..1819164_POSITIVE 210 101 65 180 144 pint:PI0059|5end_peptide_chain_release_factor_RF-2_57132..57362_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 230 89 48 120 78 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 226 94 67 125 98 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE 224 120 77 54 9 pint:PI0328|3end_conserved_hypothetical_protein_309993..310143_POSITIVE 223 85 51 115 78 pint:PI1025|3end_tRNA_modification_GTPase_942232..942382_POSITIVE 218 103 73 44 17 pint:PI0606|3end_naphthoate_synthase_553917..554067_POSITIVE 215 102 65 41 5 pint:PI0913|3end_glycerate_dehydrogenase_843733..843883_POSITIVE 210 85 41 151 117 pint:PI0241|3end_possible_tetracycline_resistance_element_/mobilization_regulatory_protein_240036..240186_POSITIVE 209 43 4 123 80 pint:PI0976|3end_dihydrolipoamide_dehydrogenase_(dihydrolipoyl_dehydrogenanse)_903732..903882_POSITIVE 209 60 26 41 12 pint:PI0943|3end_conserved_hypothetical_protein_875991..876141_POSITIVE 206 92 64 149 119 pint:PI0471|3end_50S_ribosomal_protein_L24_438151..438301_POSITIVE 205 87 52 144 114 pint:PI1514|3end_tRNA_nucleotidyltransferase/poly(A)_polymerase_1434072..1434222_POSITIVE 203 111 72 38 1 pint:PI0935|3end_collagenase,_protease_868320..868470_POSITIVE 202 69 26 126 78 pint:PI0668|3end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610955..611105_POSITIVE 200 112 74 87 43 pint:PI1212|3end_shikimate_5-dehydrogenase_1131515..1131665_POSITIVE 198 98 60 47 7 pint:PI0648|3end_hypothetical_protein_589731..589881_POSITIVE 196 100 56 58 1 pint:PI0851|3end_hypothetical_protein_784524..784674_POSITIVE 194 97 66 133 102 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 192 109 70 148 114 pint:PI2124|3end_excinuclease_ABC,_subunit_C_2074496..2074646_POSITIVE 189 94 55 127 92 pint:PI1091|3end_transcriptional_regulator,_AsnC_family_1016754..1016904_POSITIVE 187 116 73 76 25 pint:PI1523|3end_DNA_polymerase_III,_alpha_subunit_1445890..1446040_POSITIVE