Origin IGS: tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta .........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 taaaattttagaaatttttgtgaattatgtaaaaaatctccgataagtgggtatttgtatagtaaaaagcaatattcatacttattaatcggagtttttttttatgtctcatctttagcgttaatagactaatttaattagtcgccatgaaatggtgtctacctttatttttattgaagccttgggtgaattataagtccaagccacttggttggatatgggtacggcta Mask Tandem Repeat Region ================================================ tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Find is-nt database================================================ Query_seq: AA02921:AA02922|AA02921:AA02922:conserved hypothetical protein (cell filamentation protein):gamma-glutamylphosphate reductase:->->:2046135..2046364 230 tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02921:AA02922|AA02921:AA02922:conserved hypothetical protein (cell filamentation protein):gamma-glutamylphosphate reductase:->->:2046135..2046364 230 tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02921:AA02922|AA02921:AA02922:conserved hypothetical protein (cell filamentation protein):gamma-glutamylphosphate reductase:->->:2046135..2046364 230 tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 12 End: 107 ........... M S N Q V A W T Y N S P K A S I K I K V D T I S W R L I K L V Y ........................................................................................................................... Protein_Len: 41 Strand: + Start: 98 End: 220 ................................................................................................. M S L L T L K M R H K K K L R L I S M N I A F Y Y T N T H L S E I F Y I I H K N F .......... tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta 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: 85 Start: 197 End: 226 ....................................................................................................................................................................................................TTTTACATAATTCACAAAAATTTCTAAAAT.... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 70 HP_score: -8.1 Tail_Score: -3.04144 Start: 88 End: 104 Full_Region: ACACCATTTCATGGC GACTAAT TAA ATTAGTC TATTAACGCTAAAGA .......................................................................................GACTAATTAAATTAGTC.............................................................................................................................. Find igs database================================================ Query_seq: AA02921:AA02922|AA02921:AA02922:conserved hypothetical protein (cell filamentation protein):gamma-glutamylphosphate reductase:->->:2046135..2046364 230 tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Intra-Species Hit: Count: 1 Min: 1 Max: 230 Len: 230 Subject: aact_AA02921_AA02922|conserved hypothetical protein (cell filamentation protein):gamma-glutamylphosphate reductase|POSITIVE:POSITIVE|[2046135,2046364]|230 HSP 1 e-value: 1.0E-111 bit: 402.0 Len: 230 Query Start:1 Query End:230 Subject Strand: POSITIVE Subject Start: 1 Subject End: 230 tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacatnnnnnnnnnctccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta tagccgtacccatatccaaccaagtggcttggacttataattcacccaaggcttcaataaaaataaaggtagacaccatttcatggcgactaattaaattagtctattaacgctaaagatgagacataaaaaaaaactccgattaataagtatgaatattgctttttactatacaaatacccacttatcggagattttttacataattcacaaaaatttctaaaatttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCGUACCCAUAUCCAACCAAGUGGCUUGGACUUAUAAUUCACCCAAGGCUUCAAUAAAAAUAAAGGUAGACACCAUUUCAUGGCGACUAAUUAAAUUAGUCUAUUAACGCUAAAGAUGAGACAUAAAAAAAAACUCCGAUUAAUAAGUAUGAAUAUUGCUUUUUACUAUACAAAUACCCACUUAUCGGAGAUUUUUUACAUAAUUCACAAAAAUUUCUAAAAUUUUA ((((.((..((((.(((((((....)).)))))..................................(((....))).....)))).(((((((...))))))).....))))))....((((......((((((.(((((((......((((...(((...........)))...))))......))))))).))))))......)))).................... (-35.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUUUAGAAAUUUUUGUGAAUUAUGUAAAAAAUCUCCGAUAAGUGGGUAUUUGUAUAGUAAAAAGCAAUAUUCAUACUUAUUAAUCGGAGUUUUUUUUUAUGUCUCAUCUUUAGCGUUAAUAGACUAAUUUAAUUAGUCGCCAUGAAAUGGUGUCUACCUUUAUUUUUAUUGAAGCCUUGGGUGAAUUAUAAGUCCAAGCCACUUGGUUGGAUAUGGGUACGGCUA .................(((((....((((((((((.(((((((.(((((((((..((((.((.....)).))))..))))))))).)))))))...)))))))))).((((((...((.((((((((..(((.....(((.((((((...)))))).))).....))))))))))).))...)))))).......((((((.((....)))))))).....)))))... (-56.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 47 3 225 180 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 294 56 11 176 135 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 279 55 16 127 91 aact:AA01556|5end_ABC_transporter_ATP-binding_protein_1044218..1044448_POSITIVE 274 60 12 69 25 aact:AA02303|5end_ATP-dependent_DNA_helicase_1572696..1572926_POSITIVE 263 52 26 147 121 aact:AA01522|5end_conserved_hypothetical_protein_1022840..1023070_POSITIVE 255 89 43 135 84 aact:AA01928|5end_ATP-dependent_RNA_helicase_1301986..1302216_POSITIVE 255 49 4 126 79 aact:AA01773|5end_hypothetical_protein_1194877..1195107_POSITIVE 253 36 3 81 39 aact:AA00347|5end_50S_ribosomal_protein_L11_232137..232367_POSITIVE 247 56 19 162 117 aact:AA02037|5end_hypothetical_protein_1386832..1387062_POSITIVE 244 57 21 152 122 aact:AA02869|5end_hypothetical_protein_2013788..2014018_POSITIVE 240 49 3 191 154 aact:AA01553|5end_conserved_hypothetical_protein_1039220..1039450_POSITIVE 238 44 1 199 166 aact:AA00845|5end_hypothetical_protein_584531..584761_POSITIVE 237 126 81 36 3 aact:AA02044|5end_phosphotransferase_system_enzyme_II,_galactitol_specific,_protein_A_1391488..1391718_POSITIVE 234 47 3 60 29 aact:AA02172|5end_conserved_hypothetical_protein_1486019..1486249_POSITIVE 233 55 16 166 139 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 233 46 3 150 112 aact:AA01176|5end_hypothetical_protein_806309..806539_POSITIVE 231 29 2 183 152 aact:AA00013|5end_hypothetical_protein_6695..6925_POSITIVE 229 29 2 103 70 aact:AA00141|5end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_100814..101044_POSITIVE 227 120 81 202 160 aact:AA01072|5end_GTP_pyrophosphokinase_(ppGpp_synthetase_I)_/_ATP:GTP3'-pyrophosphotransferase_742934..743164_POSITIVE 225 60 11 176 129 aact:AA01892|5end_hypothetical_protein_1276688..1276918_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 60 12 88 44 aact:AA02301|3end_chorismate_lyase_1572795..1572945_POSITIVE 273 88 41 60 13 aact:AA00507|3end_hypothetical_protein_353201..353351_POSITIVE 263 52 26 147 121 aact:AA01519.1|3end_conserved_hypothetical_protein_1022920..1023070_POSITIVE 263 52 26 114 88 aact:AA01520|3end_hypothetical_protein_1022887..1023037_POSITIVE 255 89 43 60 9 aact:AA01927|3end_conserved_hypothetical_protein_1301991..1302141_POSITIVE 255 49 4 111 64 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 253 54 16 151 116 aact:AA01555|3end_ABC_transporter,_ATP-binding_protein_1044323..1044473_POSITIVE 251 37 3 123 84 aact:AA02014|3end_probable_hemolysin_1370977..1371127_POSITIVE 250 32 2 136 101 aact:AA01220|3end_competence_protein_F;_amidophosphoribosyltransferase_833538..833688_POSITIVE 244 57 21 132 102 aact:AA02867|3end_ribonuclease_T_2013848..2013998_POSITIVE 243 51 19 144 110 aact:AA02035|3end_translation_initiation_factor_IF-3_1386905..1387055_POSITIVE 239 44 2 149 105 aact:AA01263|3end_hypothetical_protein_861086..861236_POSITIVE 238 44 1 131 98 aact:AA00844|3end_cell_division_protein_I;_penicillin_binding_protein_2X_584543..584693_POSITIVE 237 126 81 55 22 aact:AA02043|3end_tagatose_6-phosphate_kinase_1391587..1391737_POSITIVE 234 47 3 57 26 aact:AA02171|3end_polysialic_acid_capsule_expression_protein_1486096..1486246_POSITIVE 229 29 2 81 48 aact:AA00140|3end_hypothetical_protein_100872..101022_POSITIVE 228 63 22 137 94 aact:AA00227|3end_hypothetical_sequence_156642..156792_POSITIVE 223 49 4 65 7 aact:AA00809|3end_possible_oxidoreductase_555435..555585_POSITIVE 221 30 3 40 17 aact:AA01247|3end_hypothetical_protein_849944..850094_POSITIVE 219 32 1 72 39 aact:AA01066|3end_conserved_hypothetical_protein_738900..739050_POSITIVE