Origin IGS: taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atctcccaacccaacaaatacagctaacgaaataaaaaagaataaaaaggctttgtagaagcctgtttattgtctttataatagaagtataagataataggaataagaaaaagaatgatatatataatcatattagtgtatcatttgaaggaataaatcagtgaaatacttgacttta Mask Tandem Repeat Region ================================================ taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat Find is-nt database================================================ Query_seq: PI1113:PI1115|PI1113:PI1115:conserved hypothetical protein:conserved hypothetical protein:->->:1039206..1039383 178 taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1113:PI1115|PI1113:PI1115:conserved hypothetical protein:conserved hypothetical protein:->->:1039206..1039383 178 taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1113:PI1115|PI1113:PI1115:conserved hypothetical protein:conserved hypothetical protein:->->:1039206..1039383 178 taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 48 End: 152 ............................................... M I I Y I I L F L I P I I L Y F Y Y K D N K Q A S T K P F Y S F L F R .......................... Protein_Len: 40 Strand: + Start: 58 End: 177 ......................................................... M S F F F L F L L S Y T S I I K T I N R L L Q S L F I L F Y F V S C I C W V G R . taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat 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================================================ taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 84 HP_score: -5.0 Tail_Score: -5.72053 Start: 107 End: 139 Full_Region: CTTCTATTATAAAGA CAATAAACAGGCTT CTACA AAGCCTTTTTATTC TTTTTTATTTCGTTA ..........................................................................................................CAATAAACAGGCTTCTACAAAGCCTTTTTATTC....................................... TransTerm Strand: + Conf: 81 HP_score: -6.7 Tail_Score: -4.88687 Start: 110 End: 136 Full_Region: CTATTATAAAGACAA TAAACAGGCTT CTACA AAGCCTTTTTA TTCTTTTTTATTTCG .............................................................................................................TAAACAGGCTTCTACAAAGCCTTTTTA.......................................... TransTerm Strand: - Conf: 73 HP_score: -7.4 Tail_Score: -3.91882 Start: 110 End: 136 Full_Region: cgaaataaaaaagaa taaaaaggcttt gta gaagcctgttta ttgtctttataatag .............................................................................................................taaaaaggctttgtagaagcctgttta.......................................... TransTerm Strand: + Conf: 89 HP_score: -5.7 Tail_Score: -5.54403 Start: 116 End: 130 Full_Region: TAAAGACAATAAACA GGCTT CTACA AAGCC TTTTTATTCTTTTTT ...................................................................................................................GGCTTCTACAAAGCC................................................ Find igs database================================================ Query_seq: PI1113:PI1115|PI1113:PI1115:conserved hypothetical protein:conserved hypothetical protein:->->:1039206..1039383 178 taaagtcaagtatttcactgatttattccttcaaatgatacactaatatgattatatatatcattctttttcttattcctattatcttatacttctattataaagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat Intra-Species Hit: Count: 1 Min: 1 Max: 178 Len: 178 Subject: pint_PI1113_PI1115|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1039206,1039383]|178 HSP 1 e-value: 9.0E-36 bit: 151.0 Len: 76 Query Start:103 Query End:178 Subject Strand: POSITIVE Subject Start: 103 Subject End: 178 ......................................................................................................aagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat ......................................................................................................aagacaataaacaggcttctacaaagcctttttattcttttttatttcgttagctgtatttgttgggttgggagat HSP 2 e-value: 3.0E-17 bit: 89.7 Len: 45 Query Start:1 Query End:45 Subject Strand: POSITIVE Subject Start: 1 Subject End: 45 taaagtcaagtatttcactgatttattccttcaaatgatacacta..................................................................................................................................... taaagtcaagtatttcactgatttattccttcaaatgatacacta..................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGUCAAGUAUUUCACUGAUUUAUUCCUUCAAAUGAUACACUAAUAUGAUUAUAUAUAUCAUUCUUUUUCUUAUUCCUAUUAUCUUAUACUUCUAUUAUAAAGACAAUAAACAGGCUUCUACAAAGCCUUUUUAUUCUUUUUUAUUUCGUUAGCUGUAUUUGUUGGGUUGGGAGAU ..((((((.((.....)))))))).........(((((((.....(((....)))...)))))))...(((((((..((((....(..((((..(((..(((((((.((((((.((((((.....)))))).))))))..))))))).....)))..))))..).)))).))))))). (-31.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUCCCAACCCAACAAAUACAGCUAACGAAAUAAAAAAGAAUAAAAAGGCUUUGUAGAAGCCUGUUUAUUGUCUUUAUAAUAGAAGUAUAAGAUAAUAGGAAUAAGAAAAAGAAUGAUAUAUAUAAUCAUAUUAGUGUAUCAUUUGAAGGAAUAAAUCAGUGAAAUACUUGACUUUA ...(((....((...................................(((((((...)))))))...((((((((((((.......))).)))))))))))...........(((((((((((.((((...)))))))))))))))...))).......(((.((....)).)))... (-25.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 239 160 116 142 98 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 227 157 111 173 137 pint:PI0946|5end_glutathione_peroxidase_877973..878203_POSITIVE 225 169 128 110 63 pint:PI1635|5end_hypothetical_protein_1553948..1554178_POSITIVE 217 167 128 162 120 pint:PI0662|5end_conserved_hypothetical_protein_604147..604377_POSITIVE 215 168 125 188 146 pint:PI2091|5end_DNA_processing_protein_2048019..2048249_POSITIVE 215 152 114 231 192 pint:PI1082|5end_polypeptide_deformylase_1001282..1001512_POSITIVE 214 154 112 185 146 pint:PI0935|5end_collagenase,_protease_866297..866527_POSITIVE 212 157 116 199 149 pint:PI1646|5end_hypothetical_protein_1561954..1562184_POSITIVE 208 157 114 193 144 pint:PI1388|5end_transcriptional_regulator,_LuxR_family_1309354..1309584_POSITIVE 207 156 113 58 1 pint:PI1550|5end_conserved_hypothetical_protein_1467360..1467590_POSITIVE 206 158 114 183 147 pint:PI0560|5end_hypothetical_protein_508600..508830_POSITIVE 203 158 116 172 139 pint:PI0889|5end_pyruvate_kinase_818758..818988_POSITIVE 200 129 82 193 141 pint:PI0984|5end_hypothetical_protein_909936..910166_POSITIVE 200 169 128 157 122 pint:PI0531|5end_ABC_transporter,_ATP-binding_protein;_possible_gliding_motility_related_484696..484926_POSITIVE 199 159 115 115 65 pint:PI2157|5end_xanthosine_triphosphate_pyrophosphatase,_HAM1_family_2103736..2103966_POSITIVE 197 159 117 147 104 pint:PI1760|5end_hypothetical_protein_1684413..1684643_POSITIVE 197 170 125 161 114 pint:PI1736|5end_topoisomerase_IV,_subunit_A_1654254..1654484_POSITIVE 197 161 124 201 158 pint:PI1121|5end_glycosyltransferase_1045995..1046225_POSITIVE 196 170 129 167 123 pint:PI1096|5end_glycosyltransferase_1020217..1020447_POSITIVE 196 129 108 181 160 pint:PI1087|5end_conserved_hypothetical_protein_1010296..1010526_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 159 119 146 96 pint:PI0949|3end_endonuclease_883279..883429_POSITIVE 244 157 113 88 49 pint:PI0262|3end_conserved_hypothetical_protein_255094..255244_POSITIVE 235 158 128 80 44 pint:PI1548|3end_conserved_hypothetical_protein_1466886..1467036_POSITIVE 225 170 122 130 89 pint:PI0487|3end_50S_ribosomal_protein_L17_446703..446853_POSITIVE 223 144 114 147 120 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 217 167 128 150 108 pint:PI0661|3end_hypothetical_protein_604215..604365_POSITIVE 207 154 114 151 103 pint:PI1971|3end_possible_IS1249-related_transposase_1928949..1929099_POSITIVE 207 154 114 151 103 pint:PI1533|3end_conserved_hypothetical_protein;_possible_transposase_1453589..1453739_POSITIVE 207 154 114 151 103 pint:PI0534|3end_conserved_hypothetical_protein;_possible_transposase_489490..489640_POSITIVE 200 169 128 138 103 pint:PI0530|3end_possible_membrane-fusion_protein_484757..484907_POSITIVE 199 157 117 106 66 pint:PI0327|3end_hypothetical_protein_309107..309257_POSITIVE 197 170 125 150 103 pint:PI1735|3end_conserved_hypothetical_protein_1654323..1654473_POSITIVE 197 38 10 136 112 pint:PI0745|3end_conserved_hypothetical_protein_675670..675820_POSITIVE 196 129 108 50 29 pint:PI1086|3end_pyruvate:ferredoxin_oxidoreductase_1010245..1010395_POSITIVE 195 133 91 133 90 pint:PI0080|3end_hypothetical_protein_80422..80572_POSITIVE 194 169 128 38 1 pint:PI1371|3end_hypothetical_protein_1292546..1292696_POSITIVE 194 157 113 109 70 pint:PI0247|3end_conjugative_transposon_protein,_TraA_246232..246382_POSITIVE 191 157 115 80 32 pint:PI1732|3end_hypothetical_protein_1652098..1652248_POSITIVE 188 140 93 146 95 pint:PI1331|3end_conserved_hypothetical_protein_1249463..1249613_POSITIVE 188 117 74 54 9 pint:PI0981|3end_outer_membrane_protein,_TonB_dependent_receptor_909390..909540_POSITIVE