Origin IGS: taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atctactccaacaattcttattgccattgattgtaattaattaaaaatttttgtttgcgataaactttgcaaagttactcatttattattaagcaacattaagtttacgcttttttaacttttta Mask Tandem Repeat Region ================================================ taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Find is-nt database================================================ Query_seq: PI0482:PI0483|PI0482:PI0483:50S ribosomal protein L36:30S ribosomal protein S13:->->:443600..443724 125 taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0482:PI0483|PI0482:PI0483:50S ribosomal protein L36:30S ribosomal protein S13:->->:443600..443724 125 taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0482:PI0483|PI0482:PI0483:50S ribosomal protein L36:30S ribosomal protein S13:->->:443600..443724 125 taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Predict ORF larger than 30AA ================================================ taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat 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================================================ taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0482:PI0483|PI0482:PI0483:50S ribosomal protein L36:30S ribosomal protein S13:->->:443600..443724 125 taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Intra-Species Hit: Count: 1 Min: 1 Max: 125 Len: 125 Subject: pint_PI0482_PI0483|50S ribosomal protein L36:30S ribosomal protein S13|POSITIVE:POSITIVE|[443600,443724]|125 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat taaaaagttaaaaaagcgtaaacttaatgttgcttaataataaatgagtaactttgcaaagtttatcgcaaacaaaaatttttaattaattacaatcaatggcaataagaattgttggagtagat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAGUUAAAAAAGCGUAAACUUAAUGUUGCUUAAUAAUAAAUGAGUAACUUUGCAAAGUUUAUCGCAAACAAAAAUUUUUAAUUAAUUACAAUCAAUGGCAAUAAGAAUUGUUGGAGUAGAU ((((((.........((((((((((...((((((((........))))))))......))))))).))).........)))))).....((((..((...((((((....)))))).)))))).. (-20.27) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUACUCCAACAAUUCUUAUUGCCAUUGAUUGUAAUUAAUUAAAAAUUUUUGUUUGCGAUAAACUUUGCAAAGUUACUCAUUUAUUAUUAAGCAACAUUAAGUUUACGCUUUUUUAACUUUUUA ................((((((((..(((((((....))))))).........(((((((......)))))))...................))))...))))...................... (-12.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 70 24 62 12 pint:PI1086|5end_pyruvate:ferredoxin_oxidoreductase_1006602..1006832_POSITIVE 209 68 31 224 192 pint:PI1803|5end_conserved_hypothetical_protein_1735081..1735311_POSITIVE 207 72 45 43 20 pint:PI1766|5end_sugar_transporter,_possible_glucose/galactose_transporter_1693119..1693349_POSITIVE 204 120 90 96 63 pint:PI0810|5end_hypothetical_protein_746743..746973_POSITIVE 204 120 90 91 58 pint:PI0811|5end_protease/hemagglutinin_PrtT,_streptopain_family_746738..746968_POSITIVE 193 69 43 66 34 pint:PI0473|5end_30S_ribosomal_protein_S14_438634..438864_POSITIVE 191 60 15 112 64 pint:PI1679|5end_hypothetical_protein_1594744..1594974_POSITIVE 186 69 26 68 27 pint:PI1116|5end_conserved_hypothetical_protein_1040257..1040487_POSITIVE 185 75 45 203 173 pint:PI0684|5end_coproporphyrinogen_III_oxidase_619357..619587_POSITIVE 185 75 45 138 108 pint:PI0683|5end_hypothetical_protein_619292..619522_POSITIVE 184 120 98 95 71 pint:PI2016|5end_ribosomal_large_subunit_pseudouridine_synthase_D_1973768..1973998_POSITIVE 181 118 79 202 152 pint:PI1817|5end_ISPg3-related_transposase_1755520..1755750_POSITIVE 180 120 95 121 96 pint:PI1644|5end_hypothetical_protein_1560372..1560602_POSITIVE 180 120 95 121 96 pint:PI0349|5end_hypothetical_protein_323144..323374_POSITIVE 177 70 32 168 123 pint:PI0656|5end_peptidase_T_(tripeptide_aminopeptidase)_599833..600063_POSITIVE 175 69 31 37 1 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 174 120 99 89 62 pint:PI1890|5end_cell_division_protein_FtsW_1832886..1833116_POSITIVE 174 59 42 176 159 pint:PI0905|5end_hypothetical_protein_834399..834629_POSITIVE 173 61 22 219 178 pint:PI1028|5end_glutamate_synthase,_small_subunit_943420..943650_POSITIVE 173 79 31 131 82 pint:PI1015|5end_conserved_hypothetical_protein_936443..936673_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 84 47 105 69 pint:PI0953|3end_hypothetical_protein_885390..885540_POSITIVE 229 69 21 54 5 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 211 72 47 149 127 pint:PI0951|3end_hypothetical_protein_885448..885598_POSITIVE 201 47 1 83 36 pint:PI1808|3end_LacI_family_transcriptional_regulator_1743350..1743500_POSITIVE 199 72 53 22 3 pint:PI1765|3end_fructanase,_glycoside_hydrolase_family_1693178..1693328_POSITIVE 193 69 43 57 25 pint:PI0472|3end_50S_ribosomal_protein_L5_438705..438855_POSITIVE 188 67 26 111 68 pint:PI1553|3end_hypothetical_protein_1470170..1470320_POSITIVE 186 69 26 62 21 pint:PI1115|3end_conserved_hypothetical_protein_1040331..1040481_POSITIVE 185 75 45 138 108 pint:PI0682|3end_hypothetical_protein_619372..619522_POSITIVE 184 120 98 43 19 pint:PI2015|3end_D-alanine--D-alanine_ligase_1973796..1973946_POSITIVE 181 118 79 116 66 pint:PI1816|3end_acid_phosphatase_1755514..1755664_POSITIVE 181 57 15 76 29 pint:PI0017|3end_thiol-disulfide_isomerase;_thioredoxin_22835..22985_POSITIVE 180 120 95 108 83 pint:PI1642|3end_conserved_hypothetical_protein_1560439..1560589_POSITIVE 180 120 95 108 83 pint:PI0348|3end_conserved_hypothetical_protein_323211..323361_POSITIVE 178 70 29 81 36 pint:PI0576|3end_helicase,_UvrD/Rep_521724..521874_POSITIVE 173 61 22 118 77 pint:PI1027|3end_hypothetical_protein_943399..943549_POSITIVE 172 50 7 73 35 pint:PI1323|3end_conserved_hypothetical_protein_1242483..1242633_POSITIVE 170 114 95 28 11 pint:PI1974|3end_hypothetical_protein_1931587..1931737_POSITIVE 170 73 39 136 104 pint:PI0092|3end_regulatory_protein_RecX_89651..89801_POSITIVE 168 69 43 131 110 pint:PI1328|3end_conserved_hypothetical_protein_1246780..1246930_POSITIVE