Origin IGS: tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgctgcaaaagtgttgctaatgtgtacaaagttagttttattctgccatatctacaaattattttcgacgagtaatgccccttgcttcgacgaaaatgcgaatatacaggtaatgcaacagcaaacataagcatctcttcaccgaaacacctgccttgtttttaaagcagtcagtattcaatgtggcaggcagacagtttca Mask Tandem Repeat Region ================================================ tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Find is-nt database================================================ Query_seq: PI0024:PI0025|PI0024:PI0025:hypothetical protein:two component system sensor histidine kinase:->->:28620..28821 202 tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0024:PI0025|PI0024:PI0025:hypothetical protein:two component system sensor histidine kinase:->->:28620..28821 202 tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0024:PI0025|PI0024:PI0025:hypothetical protein:two component system sensor histidine kinase:->->:28620..28821 202 tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 10 End: 141 ......... M P A T L N T D C F K N K A G V S V K R C L C L L L H Y L Y I R I F V E A R G I T R R K ............................................................. Protein_Len: 44 Strand: + Start: 69 End: 200 .................................................................... M L M F A V A L P V Y S H F R R S K G H Y S S K I I C R Y G R I K L T L Y T L A T L L Q .. Protein_Len: 39 Strand: - Start: 76 End: 192 ........................................................................... T Q Q Q M V Q I N A N E D F C P A N S T S F L K Y I H C F L V L K T C M L L M .......... tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca 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================================================ tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0024:PI0025|PI0024:PI0025:hypothetical protein:two component system sensor histidine kinase:->->:28620..28821 202 tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Intra-Species Hit: Count: 1 Min: 1 Max: 202 Len: 202 Subject: pint_PI0024_PI0025|hypothetical protein:two component system sensor histidine kinase|POSITIVE:POSITIVE|[28620,28821]|202 HSP 1 e-value: 1.0E-111 bit: 400.0 Len: 202 Query Start:1 Query End:202 Subject Strand: POSITIVE Subject Start: 1 Subject End: 202 tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca tgaaactgtctgcctgccacattgaatactgactgctttaaaaacaaggcaggtgtttcggtgaagagatgcttatgtttgctgttgcattacctgtatattcgcattttcgtcgaagcaaggggcattactcgtcgaaaataatttgtagatatggcagaataaaactaactttgtacacattagcaacacttttgcagca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAACUGUCUGCCUGCCACAUUGAAUACUGACUGCUUUAAAAACAAGGCAGGUGUUUCGGUGAAGAGAUGCUUAUGUUUGCUGUUGCAUUACCUGUAUAUUCGCAUUUUCGUCGAAGCAAGGGGCAUUACUCGUCGAAAAUAAUUUGUAGAUAUGGCAGAAUAAAACUAACUUUGUACACAUUAGCAACACUUUUGCAGCA ...........((.(((..(((((((.((...(((((((......)))))))..)))))))))....(.((((.((((.(((.((((......(((((((((..((((((((.(((.((.....)).....))).)))))).....))..))))).))))........))))...))).)))).)))).)......))))). (-47.14) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUGCAAAAGUGUUGCUAAUGUGUACAAAGUUAGUUUUAUUCUGCCAUAUCUACAAAUUAUUUUCGACGAGUAAUGCCCCUUGCUUCGACGAAAAUGCGAAUAUACAGGUAAUGCAACAGCAAACAUAAGCAUCUCUUCACCGAAACACCUGCCUUGUUUUUAAAGCAGUCAGUAUUCAAUGUGGCAGGCAGACAGUUUCA ((((((...((((..((((((.........))))))..))))(((((((((........((((((((.(((((((......)))).))).)))))))).((((((..(((..((((..............))))..)))...........((((.(((....))).))))...)))))).))))))))))))).))...... (-46.84) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 410 116 77 83 33 pint:PI1633|5end_hypothetical_protein_1552504..1552734_POSITIVE 346 129 103 91 68 pint:PI0644|5end_dnaJ_protein_585704..585934_POSITIVE 333 127 81 51 3 pint:PI0614|5end_glucose-6-phosphate_isomerase_563170..563400_POSITIVE 316 120 75 222 166 pint:PI0764|5end_permease_697962..698192_POSITIVE 310 89 44 65 18 pint:PI2176|5end_conserved_hypothetical_protein_2116484..2116714_POSITIVE 310 88 44 111 54 pint:PI0100|5end_LPS_biosynthesis_protein_(lipopolysaccharide_biosynthesis_protein)_95843..96073_POSITIVE 308 156 111 70 26 pint:PI0590|5end_ribosomal_large_subunit_pseudouridine_synthase_B_536963..537193_POSITIVE 307 98 54 183 135 pint:PI1811|5end_conserved_hypothetical_protein_1749518..1749748_POSITIVE 302 99 52 219 170 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 301 98 59 155 125 pint:PI1415|5end_cation_transporting_ATPase/E1-E2_ATPase_1333939..1334169_POSITIVE 301 98 59 129 99 pint:PI1414|5end_conserved_hypothetical_protein_1333913..1334143_POSITIVE 295 138 93 206 153 pint:PI1657|5end_hypothetical_protein_1570721..1570951_POSITIVE 292 157 117 77 31 pint:PI1389|5end_transcriptional_regulator,_LuxR_family_1310039..1310269_POSITIVE 290 127 81 161 120 pint:PI0520|5end_hypothetical_protein_478755..478985_POSITIVE 289 59 12 182 141 pint:PI1652|5end_hypothetical_protein_1564655..1564885_POSITIVE 289 127 81 165 109 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 288 129 81 99 45 pint:PI1501|5end_GTP-binding_elongation_factor_family_protein_TypA/BipA_1421424..1421654_POSITIVE 284 89 49 230 192 pint:PI0970|5end_hypothetical_protein_897254..897484_POSITIVE 284 89 47 60 13 pint:PI0218|5end_conserved_hypothetical_protein_210770..211000_POSITIVE 281 84 43 85 35 pint:PI0597|5end_hypothetical_protein_546626..546856_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 98 54 151 103 pint:PI1810|3end_outer_membrane_protein_1749566..1749716_POSITIVE 302 90 49 145 104 pint:PI0583|3end_hypothetical_protein_526276..526426_POSITIVE 301 98 59 95 65 pint:PI1413|3end_hypothetical_protein_1333959..1334109_POSITIVE 298 159 117 56 16 pint:PI0663|3end_possible_transcriptional_regulator_606543..606693_POSITIVE 298 160 111 124 74 pint:PI0592|3end_DNA_mismatch_repair_protein_542611..542761_POSITIVE 294 128 81 147 94 pint:PI1504|3end_non-specific_DNA-binding_protein_1424904..1425054_POSITIVE 290 119 71 127 85 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 290 127 81 135 94 pint:PI0519|3end_5'-nucleotidase/2',3'-cyclic_phosphodiesterase_478809..478959_POSITIVE 289 127 81 141 85 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 289 90 54 120 79 pint:PI0195|3end_epimerase/reductase_188202..188352_POSITIVE 286 89 46 139 96 pint:PI0182|3end_hypothetical_protein_174277..174427_POSITIVE 281 128 81 64 2 pint:PI0362|3end_hypothetical_protein_333938..334088_POSITIVE 280 89 43 132 71 pint:PI0123|3end_outer_membrane_protein,_ompH_family_114501..114651_POSITIVE 279 117 71 129 86 pint:PI2145|3end_hypothetical_protein_2092649..2092799_POSITIVE 277 136 93 64 16 pint:PI1783|3end_possible_4-diphosphocytidyl-2c-methyl-D-erythritol_synthase_1716158..1716308_POSITIVE 277 87 47 123 84 pint:PI1488|3end_hypothetical_protein_1407829..1407979_POSITIVE 274 90 48 129 78 pint:PI2074|3end_conserved_hypothetical_protein_2034375..2034525_POSITIVE 273 160 111 108 56 pint:PI0879|3end_hypothetical_protein_814051..814201_POSITIVE 272 69 26 100 48 pint:PI2028|3end_shikimate_kinase_1982802..1982952_POSITIVE 271 149 103 64 18 pint:PI1635|3end_hypothetical_protein_1554306..1554456_POSITIVE