Origin IGS: tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgatttcaaacggtttattttggagtttaaagagcttttattaactttgccaatatggaacaagaaagttttgcacgacaatacagcccagtaaactatacaatgaacgtaagaggacaactcttcgacctctcgaagccttgtgta Mask Tandem Repeat Region ================================================ tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Find is-nt database================================================ Query_seq: PI0073:PI0074|PI0073:PI0074:dihydropteroate synthase:Na+/phosphate symporter (sodium-dependent inorganic phosphate (Pi) transporter):->->:71846..71992 147 tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0073:PI0074|PI0073:PI0074:dihydropteroate synthase:Na+/phosphate symporter (sodium-dependent inorganic phosphate (Pi) transporter):->->:71846..71992 147 tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0073:PI0074|PI0073:PI0074:dihydropteroate synthase:Na+/phosphate symporter (sodium-dependent inorganic phosphate (Pi) transporter):->->:71846..71992 147 tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 28 End: 147 ........................... M S S Y V H C I V Y W A V L S C K T F L F H I G K V N K S S L N S K I N R L K S Protein_Len: 36 Strand: - Start: 1 End: 108 V C P K S L D F L Q G R V N M T Y N V P S Y Q R A F S E Q E M N A F N M ....................................... tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca 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================================================ tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0073:PI0074|PI0073:PI0074:dihydropteroate synthase:Na+/phosphate symporter (sodium-dependent inorganic phosphate (Pi) transporter):->->:71846..71992 147 tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Intra-Species Hit: Count: 1 Min: 1 Max: 147 Len: 147 Subject: pint_PI0073_PI0074|dihydropteroate synthase:Na+/phosphate symporter (sodium-dependent inorganic phosphate (Pi) transporter)|POSITIVE:POSITIVE|[71846,71992]|147 HSP 1 e-value: 3.0E-78 bit: 291.0 Len: 147 Query Start:1 Query End:147 Subject Strand: POSITIVE Subject Start: 1 Subject End: 147 tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca tacacaaggcttcgagaggtcgaagagttgtcctcttacgttcattgtatagtttactgggctgtattgtcgtgcaaaactttcttgttccatattggcaaagttaataaaagctctttaaactccaaaataaaccgtttgaaatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACACAAGGCUUCGAGAGGUCGAAGAGUUGUCCUCUUACGUUCAUUGUAUAGUUUACUGGGCUGUAUUGUCGUGCAAAACUUUCUUGUUCCAUAUUGGCAAAGUUAAUAAAAGCUCUUUAAACUCCAAAAUAAACCGUUUGAAAUCA ...((((..((((((....))))))..))))..((..(((((.(((....((((((..(((((((((....))))..((((((((.((.....)).)).))))))......)))))..))))))....))).)).)))..))..... (-29.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUUCAAACGGUUUAUUUUGGAGUUUAAAGAGCUUUUAUUAACUUUGCCAAUAUGGAACAAGAAAGUUUUGCACGACAAUACAGCCCAGUAAACUAUACAAUGAACGUAAGAGGACAACUCUUCGACCUCUCGAAGCCUUGUGUA ............(((((((.((.((((((..(.((.........(((..((.....))...)))...((.(((.....))).)).)).)..)))))).)).)))))))......(.((((..((((((....))))))..)))).). (-25.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 66 21 231 184 pint:PI2016|5end_ribosomal_large_subunit_pseudouridine_synthase_D_1973768..1973998_POSITIVE 303 100 55 142 98 pint:PI1570|5end_succinyl-diaminopimelate_desuccinylase_1493280..1493510_POSITIVE 294 48 1 133 91 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 290 100 53 155 108 pint:PI1296|5end_glycosyltransferase_1208820..1209050_POSITIVE 286 62 27 175 139 pint:PI1670|5end_hypothetical_protein_1583725..1583955_POSITIVE 280 100 52 163 110 pint:PI1134|5end_ABC_transporter,_ATP-binding_protein_1060374..1060604_POSITIVE 278 75 33 195 151 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 275 75 32 37 1 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 269 105 61 141 74 pint:PI0762|5end_mannose-6-phosphate_isomerase,_class_I_696420..696650_POSITIVE 269 72 33 66 6 pint:PI0388|5end_integrase_354927..355157_POSITIVE 265 43 1 59 20 pint:PI0380|5end_conserved_hypothetical_protein_350162..350392_POSITIVE 262 34 4 76 40 pint:PI0787|5end_glycosyltransferase_724136..724366_POSITIVE 262 99 55 195 143 pint:PI0393|5end_conserved_hypothetical_protein_358696..358926_POSITIVE 262 73 35 79 35 pint:PI0126|5end_conserved_hypothetical_protein_117925..118155_POSITIVE 261 50 2 231 171 pint:PI0341|5end_conserved_hypothetical_protein_317038..317268_POSITIVE 257 44 6 213 179 pint:PI0834|5end_conserved_hypothetical_protein_770785..771015_POSITIVE 256 106 65 160 119 pint:PI2105|5end_hypothetical_protein_2059357..2059587_POSITIVE 255 80 33 94 54 pint:PI1604|5end_hypothetical_protein_1534017..1534247_POSITIVE 255 100 57 156 107 pint:PI0705|5end_conserved_hypothetical_protein;_possible_lipoprotein_641274..641504_POSITIVE 253 63 21 45 1 pint:PI2163|5end_conserved_hypothetical_protein_2109445..2109675_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 100 55 49 5 pint:PI1569|3end_hypothetical_protein_1493267..1493417_POSITIVE 290 100 53 105 58 pint:PI1295|3end_hypothetical_protein_1208850..1209000_POSITIVE 280 100 52 113 60 pint:PI1133|3end_GrpE_protein_1060404..1060554_POSITIVE 265 43 1 56 17 pint:PI0379|3end_conserved_hypothetical_protein_350239..350389_POSITIVE 261 49 8 98 42 pint:PI2123|3end_adenine_phosphoribosyltransferase_2072324..2072474_POSITIVE 258 51 11 150 97 pint:PI1756|3end_conserved_hypothetical_protein_1683150..1683300_POSITIVE 256 106 65 113 72 pint:PI2104|3end_carboxyl-terminal_protease_2059390..2059540_POSITIVE 254 75 33 67 26 pint:PI0111|3end_hypothetical_protein_108265..108415_POSITIVE 253 49 5 80 33 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 253 55 11 81 23 pint:PI1766|3end_sugar_transporter,_possible_glucose/galactose_transporter_1694350..1694500_POSITIVE 251 100 51 130 72 pint:PI0062|3end_endopeptidase_63022..63172_POSITIVE 248 48 2 92 50 pint:PI1921|3end_conserved_hypothetical_protein_1865100..1865250_POSITIVE 248 80 31 136 82 pint:PI1250|3end_RNA_polymerase_ECF-type_sigma_70_factor_1174781..1174931_POSITIVE 247 92 58 53 16 pint:PI0383|3end_conserved_hypothetical_protein;_possible_Zn-dependent_hydrolase_352901..353051_POSITIVE 246 46 5 58 14 pint:PI0135|3end_internalin-related_protein_127257..127407_POSITIVE 244 62 27 96 59 pint:PI0805|3end_conserved_hypothetical_protein_743807..743957_POSITIVE 243 90 55 148 102 pint:PI0392|3end_possible_transcriptional_regulator_358735..358885_POSITIVE 241 100 60 149 111 pint:PI1922|3end_hypothetical_protein_1865454..1865604_POSITIVE 241 100 60 145 107 pint:PI1340|3end_hypothetical_protein_1256872..1257022_POSITIVE 241 70 26 57 16 pint:PI0999|3end_hypothetical_protein_922812..922962_POSITIVE