Origin IGS: aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta .........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 taatttaaagaataagagttttgtaattcagaaatacttagtatagatagttttcctcgagtaaagaaatgtagtttttcattatacaaaacccttgggattggaaataatttattatctttgctttgtatttttataactatacaatattcatataattatgtctttaagaaaagtagaaatcatt Mask Tandem Repeat Region ================================================ aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Find is-nt database================================================ Query_seq: PI0303:PI0305|PI0303:PI0305:hypothetical protein:possible aminotransferase:->->:287671..287857 187 aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0303:PI0305|PI0303:PI0305:hypothetical protein:possible aminotransferase:->->:287671..287857 187 aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0303:PI0305|PI0303:PI0305:hypothetical protein:possible aminotransferase:->->:287671..287857 187 aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 45 End: 185 ............................................ M V I K I Q S K D N K L F P I P R V L Y N E K L H F F T R G K L S I L S I S E L Q N S Y S L N .. Protein_Len: 51 Strand: - Start: 2 End: 154 . H N R S K K F V Y N Y S Y Q I T I F I C L L S L L N N G I G L T K Y L S F S C K K V R P F S D I S L M ................................. aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta 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================================================ aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0303:PI0305|PI0303:PI0305:hypothetical protein:possible aminotransferase:->->:287671..287857 187 aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 187 Len: 187 Subject: pint_PI0303_PI0305|hypothetical protein:possible aminotransferase|POSITIVE:POSITIVE|[287671,287857]|187 HSP 1 e-value: 1.0E-102 bit: 371.0 Len: 187 Query Start:1 Query End:187 Subject Strand: POSITIVE Subject Start: 1 Subject End: 187 aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta aatgatttctacttttcttaaagacataattatatgaatattgtatagttataaaaatacaaagcaaagataataaattatttccaatcccaagggttttgtataatgaaaaactacatttctttactcgaggaaaactatctatactaagtatttctgaattacaaaactcttattctttaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGAUUUCUACUUUUCUUAAAGACAUAAUUAUAUGAAUAUUGUAUAGUUAUAAAAAUACAAAGCAAAGAUAAUAAAUUAUUUCCAAUCCCAAGGGUUUUGUAUAAUGAAAAACUACAUUUCUUUACUCGAGGAAAACUAUCUAUACUAAGUAUUUCUGAAUUACAAAACUCUUAUUCUUUAAAUUA .................(((((((.(((((((((..(...)..))))))))).......................................((((((((((((....((((.(((...(((((((....)))))))..((....))...))).)))).....))))))))))))..))))))).... (-27.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUAAAGAAUAAGAGUUUUGUAAUUCAGAAAUACUUAGUAUAGAUAGUUUUCCUCGAGUAAAGAAAUGUAGUUUUUCAUUAUACAAAACCCUUGGGAUUGGAAAUAAUUUAUUAUCUUUGCUUUGUAUUUUUAUAACUAUACAAUAUUCAUAUAAUUAUGUCUUUAAGAAAAGUAGAAAUCAUU ...(((((((((((.((((.(((((....((((((((..((((.((((((((((((..(.((((.((((.......)))).)))).)....((....))...)))))......))))))).))))..)))))))).......))))).)))).))).......))))))))................ (-34.01) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 96 53 213 162 pint:PI0579|5end_hypothetical_protein_523419..523649_POSITIVE 195 97 60 85 58 pint:PI0957|5end_conserved_hypothetical_protein_888789..889019_POSITIVE 191 130 81 209 146 pint:PI2053|5end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2010673..2010903_POSITIVE 189 180 151 204 174 pint:PI0968|5end_hypothetical_protein_895946..896176_POSITIVE 186 132 94 226 186 pint:PI0850|5end_conserved_hypothetical_protein_783231..783461_POSITIVE 186 132 94 188 148 pint:PI0849|5end_hypothetical_protein_783193..783423_POSITIVE 186 161 130 48 17 pint:PI0008|5end_exoribonuclease_II_(ribonuclease_II)_7238..7468_POSITIVE 183 159 126 185 154 pint:PI2032|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_1986544..1986774_POSITIVE 183 92 56 210 173 pint:PI0607|5end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_lic_acid_synthase/2-oxoglutarate_decarboxylase_553801..554031_POSITIVE 183 135 91 49 9 pint:PI0431|5end_Xaa-Pro_aminopeptidase_403064..403294_POSITIVE 182 130 84 86 39 pint:PI1551|5end_HesA/MoeB/ThiF_family_protein_1467787..1468017_POSITIVE 182 128 82 100 44 pint:PI0868|5end_exodeoxyribonuclease_VII,_large_subunit_804201..804431_POSITIVE 179 153 114 190 135 pint:PI0799|5end_alpha-amylase_family_protein_737083..737313_POSITIVE 179 123 94 111 79 pint:PI0590|5end_ribosomal_large_subunit_pseudouridine_synthase_B_536963..537193_POSITIVE 177 160 127 156 118 pint:PI0250|5end_hypothetical_protein_246946..247176_POSITIVE 176 155 120 214 183 pint:PI0551|5end_hypothetical_protein_502328..502558_POSITIVE 175 117 76 76 32 pint:PI0835|5end_conserved_hypothetical_protein;_possible_protein-export_membrane_protein_771405..771635_POSITIVE 175 118 77 229 187 pint:PI0758|5end_hypothetical_protein_690247..690477_POSITIVE 174 146 101 157 112 pint:PI1108|5end_conserved_hypothetical_protein_1031456..1031686_POSITIVE 173 108 64 133 85 pint:PI0246|5end_conserved_hypothetical_protein_244166..244396_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 210 134 100 65 26 pint:PI1417|3end_MATE_efflux_family_protein_(Na+-driven_multidrug_efflux_pump)_1337501..1337651_POSITIVE 188 125 92 145 111 pint:PI0500|3end_mobilizable_transposon,_tnpC_protein_461407..461557_POSITIVE 186 132 94 150 110 pint:PI0848|3end_glycosyl_transferase,_group_2_family_protein_783235..783385_POSITIVE 184 180 136 141 101 pint:PI0814|3end_conserved_hypothetical_protein_754426..754576_POSITIVE 181 130 82 94 30 pint:PI1807|3end_hypothetical_protein_1742481..1742631_POSITIVE 175 117 76 64 20 pint:PI0834|3end_conserved_hypothetical_protein_771473..771623_POSITIVE 173 108 64 145 97 pint:PI0245|3end_possible_mobilization_protein_244258..244408_POSITIVE 172 124 83 99 58 pint:PI1873|3end_hypothetical_protein_1818419..1818569_POSITIVE 172 132 100 143 111 pint:PI1107|3end_conserved_hypothetical_protein_1031536..1031686_POSITIVE 171 130 91 137 94 pint:PI1776|3end_probable_peptidase_of_the_M22_family_(inactive?_chaperone?))_1709425..1709575_POSITIVE 171 133 91 85 47 pint:PI1459|3end_ribonucleotide_reductase,_alpha_subunit,_C-terminal_region_1382308..1382458_POSITIVE 170 160 126 68 26 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 167 158 112 108 55 pint:PI1942|3end_hypothetical_protein_1901269..1901419_POSITIVE 167 110 64 118 63 pint:PI1351|3end_conserved_hypothetical_protein_1268486..1268636_POSITIVE 166 140 92 101 51 pint:PI0167|3end_hypothetical_protein_163699..163849_POSITIVE 163 69 21 123 78 pint:PI1672|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1587529..1587679_POSITIVE 163 180 133 68 13 pint:PI1486|3end_alginate_O-acetylation_protein_1407062..1407212_POSITIVE 162 94 64 74 42 pint:PI0452|3end_conserved_hypothetical_protein;_possible_surface_antigen_426791..426941_POSITIVE 161 100 60 111 71 pint:PI0503|3end_mobilizable_transposon,_excision_protein_464198..464348_POSITIVE 160 104 64 113 68 pint:PI1471|3end_conserved_hypothetical_protein_1395636..1395786_POSITIVE