Origin IGS: aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcgtgatacctttcaagatacacatattgggctgtggaagtgccttgcccacgctccatcacaatgcaacttgccagatagtagaaatacgtggcaagttcttt Mask Tandem Repeat Region ================================================ aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Find is-nt database================================================ Query_seq: PI1230:PI1232|PI1230:PI1232:probable metallo-beta-lactamase family protein:conserved hypothetical protein:->->:1152790..1152896 107 aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1230:PI1232|PI1230:PI1232:probable metallo-beta-lactamase family protein:conserved hypothetical protein:->->:1152790..1152896 107 aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1230:PI1232|PI1230:PI1232:probable metallo-beta-lactamase family protein:conserved hypothetical protein:->->:1152790..1152896 107 aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 1 End: 102 F F K G R I E V I Q C T A N H H L T P L A S G C G L I H I K F P I M ..... aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta 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================================================ aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1230:PI1232|PI1230:PI1232:probable metallo-beta-lactamase family protein:conserved hypothetical protein:->->:1152790..1152896 107 aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: pint_PI1230_PI1232|probable metallo-beta-lactamase family protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1152790,1152896]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta aaagaacttgccacgtatttctactatctggcaagttgcattgtgatggagcgtgggcaaggcacttccacagcccaatatgtgtatcttgaaaggtatcacgctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGAACUUGCCACGUAUUUCUACUAUCUGGCAAGUUGCAUUGUGAUGGAGCGUGGGCAAGGCACUUCCACAGCCCAAUAUGUGUAUCUUGAAAGGUAUCACGCUUA ....(((((((((.(((.......))).)))))))))...........((((((((((..((.....))...)))).......((((((....)))))).)))))). (-29.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCGUGAUACCUUUCAAGAUACACAUAUUGGGCUGUGGAAGUGCCUUGCCCACGCUCCAUCACAAUGCAACUUGCCAGAUAGUAGAAAUACGUGGCAAGUUCUUU .....(((((..((....))..........(((((...((.....))..)))))......))))).....(((((((((....(((....))).))))))))).... (-29.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 380 78 35 227 187 pint:PI0058|5end_conserved_hypothetical_protein_56398..56628_POSITIVE 371 60 11 55 5 pint:PI2159|5end_immunoreactive_84_kDa_antigen_PG93_2105267..2105497_POSITIVE 371 73 31 61 18 pint:PI1378|5end_GTP-binding_protein_lepA_1299904..1300134_POSITIVE 354 60 13 66 22 pint:PI1935|5end_possible__internalin-related_protein_1883324..1883554_POSITIVE 340 74 36 57 9 pint:PI0034|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_37151..37381_POSITIVE 337 84 44 53 10 pint:PI1430|5end_subtilisin-like_serine_proteinase_1349598..1349828_POSITIVE 332 63 24 201 155 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 330 58 12 161 117 pint:PI0104|5end_hypothetical_protein_99105..99335_POSITIVE 328 60 12 128 63 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 327 80 33 86 21 pint:PI0668|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610216..610446_POSITIVE 324 76 31 195 121 pint:PI1187|5end_conserved_hypothetical_protein_1106692..1106922_POSITIVE 321 77 35 90 37 pint:PI1690|5end_transcription_regulator;_possible_Fe2+/Zn2+_uptake_regulation_proteins_1604984..1605214_POSITIVE 318 69 23 227 184 pint:PI1981|5end_hypothetical_protein_1937897..1938127_POSITIVE 318 49 7 109 55 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 318 80 34 98 47 pint:PI1222|5end_hypothetical_protein_1142834..1143064_POSITIVE 316 69 28 101 51 pint:PI0041|5end_hypothetical_protein_41785..42015_POSITIVE 311 86 45 67 26 pint:PI1898|5end_S-adenosyl-methyltransferase_1841288..1841518_POSITIVE 310 75 31 195 144 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 310 67 29 51 1 pint:PI0043|5end_thiamine_phosphate_pyrophosphorylase_42294..42524_POSITIVE 306 57 13 71 9 pint:PI0731|5end_conserved_hypothetical_protein_662289..662519_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 371 60 11 55 5 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 335 74 37 100 64 pint:PI0110|3end_ABC_transport_system,_ATP-binding_protein_107920..108070_POSITIVE 330 58 12 76 32 pint:PI0103|3end_conserved_hypothetical_protein;_possible_permease_99100..99250_POSITIVE 316 69 28 108 58 pint:PI0040|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41872..42022_POSITIVE 314 50 6 54 10 pint:PI0454|3end_hypothetical_protein_426963..427113_POSITIVE 301 57 14 147 92 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 299 74 32 150 93 pint:PI0911|3end_tyrosine_phenol-lyase_841209..841359_POSITIVE 292 73 46 36 4 pint:PI1377|3end_cAMP-binding_domain_protein_(cyclic_nucleotide-binding_domain)_1299959..1300109_POSITIVE 292 70 32 116 75 pint:PI0582|3end_hypothetical_protein_525214..525364_POSITIVE 292 62 30 49 13 pint:PI0305|3end_possible_aminotransferase_288967..289117_POSITIVE 291 75 34 144 97 pint:PI1609|3end_Na+/H+_anti-porter_1537100..1537250_POSITIVE 290 66 30 86 43 pint:PI1414|3end_conserved_hypothetical_protein_1334436..1334586_POSITIVE 289 68 21 115 52 pint:PI1488|3end_hypothetical_protein_1407829..1407979_POSITIVE 288 65 30 151 106 pint:PI1752|3end_conserved_hypothetical_protein_1681270..1681420_POSITIVE 288 76 35 49 4 pint:PI1049|3end_hypothetical_protein_967341..967491_POSITIVE 285 76 37 130 96 pint:PI2075|3end_conserved_hypothetical_protein_2035355..2035505_POSITIVE 284 66 29 129 92 pint:PI0031|3end_peptidylprolyl_isomerase_36131..36281_POSITIVE 283 85 42 94 38 pint:PI1265|3end_hypothetical_protein_1185512..1185662_POSITIVE 283 75 40 127 85 pint:PI0409|3end_3-deoxy-D-manno-octulosonic-acid_transferase_(kdotransferase)_375969..376119_POSITIVE 281 63 22 145 91 pint:PI1221|3end_penicillin-binding_protein_1A_1142855..1143005_POSITIVE