Origin IGS: taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaattttgtatctttgcagtgtctcacttattattgtgcatcacacaaaaaaccacctactggtgacgagggtatttagcccccagtcgtaccagtaggtggtaaattgtgttaatagtaagtgagacgactattttaacaaggctgggggcttttttaattcccccgtaaggttta Mask Tandem Repeat Region ================================================ taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Find is-nt database================================================ Query_seq: PI0368:PI0369|PI0368:PI0369:hypothetical protein:hypothetical protein:->->:340046..340223 178 taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0368:PI0369|PI0368:PI0369:hypothetical protein:hypothetical protein:->->:340046..340223 178 taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0368:PI0369|PI0368:PI0369:hypothetical protein:hypothetical protein:->->:340046..340223 178 taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 17 End: 118 ................ M K K A P S L V K I V V S L T I N T I Y H L L V R L G A K Y P R H Q ............................................................ Protein_Len: 31 Strand: - Start: 83 End: 175 .................................................................................. Q Y S Q P S F V R T V L L H N K T H H V I I L S V S C L Y L M ... taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt 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: 144 End: 173 ...............................................................................................................................................TTTGTATCTTTGCAGTGTCTCACTTATTAT..... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -11.0 Tail_Score: -5.39721 Start: 76 End: 125 Full_Region: TATTAACACAATTTA CCACCTACTGGTACGACTGGGGG CTAAATA CCCTCGTCACCAGTAGGTGG TTTTTTGTGTGATGC ...........................................................................CCACCTACTGGTACGACTGGGGGCTAAATACCCTCGTCACCAGTAGGTGG..................................................... Find igs database================================================ Query_seq: PI0368:PI0369|PI0368:PI0369:hypothetical protein:hypothetical protein:->->:340046..340223 178 taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Intra-Species Hit: Count: 2 Min: 1 Max: 178 Len: 178 Subject: pint_PI0368_PI0369|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[340046,340223]|178 HSP 1 e-value: 1.0E-96 bit: 353.0 Len: 178 Query Start:1 Query End:178 Subject Strand: POSITIVE Subject Start: 1 Subject End: 178 taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Subject: pint_PI1661_PI1662|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1576878,1577055]|178 HSP 1 e-value: 3.0E-94 bit: 345.0 Len: 178 Query Start:1 Query End:178 Subject Strand: POSITIVE Subject Start: 1 Subject End: 178 taaaccttacgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt taaaccttatgggggaattaaaaaagcccccagccttgttaaaatagtcgtctcacttactattaacacaatttaccacctactggtacgactgggggctaaataccctcgtcaccagtaggtggttttttgtgtgatgcacaataataagtgagacactgcaaagatacaaaatttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACCUUACGGGGGAAUUAAAAAAGCCCCCAGCCUUGUUAAAAUAGUCGUCUCACUUACUAUUAACACAAUUUACCACCUACUGGUACGACUGGGGGCUAAAUACCCUCGUCACCAGUAGGUGGUUUUUUGUGUGAUGCACAAUAAUAAGUGAGACACUGCAAAGAUACAAAAUUUU ..........(((((...........)))))....((((.....((((.((((((((((.((((.((((((...(((((((((((((..(((.((((........)))).))))))))))))))))...)))))).......)))).)))))))))))))).......))))...... (-70.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUUUUGUAUCUUUGCAGUGUCUCACUUAUUAUUGUGCAUCACACAAAAAACCACCUACUGGUGACGAGGGUAUUUAGCCCCCAGUCGUACCAGUAGGUGGUAAAUUGUGUUAAUAGUAAGUGAGACGACUAUUUUAACAAGGCUGGGGGCUUUUUUAAUUCCCCCGUAAGGUUUA ......(((((....))))).((((((((((((((((......((((((...((((((((((((((.(((((((.....))))....)))))))))))))))))...)))))))))))))))))))))).........(((...((.(((((...........)))))))...))).. (-71.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 482 120 75 189 144 pint:PI1662|5end_hypothetical_protein_1576916..1577146_POSITIVE 358 129 84 99 59 pint:PI0439|5end_conserved_hypothetical_protein;_possible_preprotein_translocase_subunit_SecE_410319..410549_POSITIVE 324 145 108 82 44 pint:PI1328|5end_conserved_hypothetical_protein_1246197..1246427_POSITIVE 308 116 76 187 149 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 305 130 82 168 123 pint:PI1547|5end_hypothetical_protein_1465808..1466038_POSITIVE 303 138 96 123 83 pint:PI0588|5end_hypothetical_protein_535016..535246_POSITIVE 294 120 75 90 36 pint:PI0259|5end_conserved_protein_found_in_conjugation,_TraI_252355..252585_POSITIVE 292 120 74 93 40 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 287 135 93 173 118 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 287 129 82 180 121 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 286 129 83 173 125 pint:PI0257|5end_conjugative_transposon_protein,_TraF_249348..249578_POSITIVE 283 109 72 85 56 pint:PI0938|5end_hypothetical_protein_869345..869575_POSITIVE 282 137 91 219 164 pint:PI0477|5end_30S_ribosomal_protein_S5_440392..440622_POSITIVE 277 116 77 200 166 pint:PI2134|5end_hypothetical_protein_2082269..2082499_POSITIVE 276 125 85 61 19 pint:PI0267|5end_conjugative_transposon_protein,_TraQ_258786..259016_POSITIVE 273 130 85 44 1 pint:PI2072|5end_possible_ISmav2-related_transposase_2030737..2030967_POSITIVE 269 118 76 208 170 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 269 102 61 94 53 pint:PI0912|5end_conserved_hypothetical_protein_842034..842264_POSITIVE 268 120 74 132 91 pint:PI0985|5end_aspartyl-tRNA_synthetase_910174..910404_POSITIVE 267 129 83 114 58 pint:PI2021|5end_DNA_repair_protein_1977925..1978155_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 160 114 45 4 pint:PI1661|3end_hypothetical_protein_1576817..1576967_POSITIVE 374 160 114 45 4 pint:PI0368|3end_hypothetical_protein_339985..340135_POSITIVE 324 145 108 71 33 pint:PI1327|3end_conserved_hypothetical_protein_1246266..1246416_POSITIVE 308 116 76 148 110 pint:PI0196|3end_hypothetical_protein_188643..188793_POSITIVE 286 140 93 94 47 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE 283 109 72 124 95 pint:PI0936|3end_conserved_hypothetical_protein_869464..869614_POSITIVE 267 108 68 122 69 pint:PI0788|3end_3-methyladenine_DNA_glycosylase_(DNA-3-methyladenine_glycosylase_I)_726789..726939_POSITIVE 267 170 124 45 1 pint:PI0437|3end_conserved_hypothetical_protein;_possible_ribosomal_subunit_interface_protein_408543..408693_POSITIVE 266 133 93 72 27 pint:PI2027|3end_arginine_decarboxylase_1982130..1982280_POSITIVE 266 140 92 146 77 pint:PI0875|3end_conserved_hypothetical_protein_811437..811587_POSITIVE 265 140 98 142 93 pint:PI0215|3end_hypothetical_protein_209004..209154_POSITIVE 263 139 92 129 80 pint:PI1437|3end_hypothetical_protein_1356407..1356557_POSITIVE 254 123 81 82 40 pint:PI1898|3end_S-adenosyl-methyltransferase_1842444..1842594_POSITIVE 248 126 84 132 92 pint:PI1582|3end_cell_shape-determining_protein_1510457..1510607_POSITIVE 247 159 116 83 44 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 247 121 84 54 11 pint:PI0479|3end_50S_ribosomal_protein_L15_441648..441798_POSITIVE 247 139 93 60 4 pint:PI0438|3end_elongation_factor_Tu_410304..410454_POSITIVE 247 126 85 80 36 pint:PI0394|3end_transcriptional_regulator,_AraC_family_360329..360479_POSITIVE 246 99 75 145 116 pint:PI0407|3end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_374147..374297_POSITIVE 243 119 72 144 98 pint:PI1128|3end_probable_yrdC_domain_protein,_translation_factor_(SUA5)_1055055..1055205_POSITIVE