Origin IGS: acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaggctgaaggctattttaaaaacgtaataaaattaatattaaacatatatgctattgaatattatcttcattatcgcaggcattgccatcgtgttgtggggcgcagaccgcctcaccgaaggggcggtagctgttgcagaacgt Mask Tandem Repeat Region ================================================ acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Find is-nt database================================================ Query_seq: PI0654:PI0655|PI0654:PI0655:K+-dependent Na+/Ca+ exchanger related-protein:Na+/H+ anitporter:->->:597284..597429 146 acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0654:PI0655|PI0654:PI0655:K+-dependent Na+/Ca+ exchanger related-protein:Na+/H+ anitporter:->->:597284..597429 146 acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0654:PI0655|PI0654:PI0655:K+-dependent Na+/Ca+ exchanger related-protein:Na+/H+ anitporter:->->:597284..597429 146 acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 2 End: 118 . T R C C S G G R R H P P R R G V V R H C H R R Y H L Y Y E I A Y I N L I L K M ............................ Protein_Len: 32 Strand: - Start: 1 End: 96 R E A V A V A G E T L R D A G W L V I A I G A I I F I I N L L M .................................................. acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta 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================================================ acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0654:PI0655|PI0654:PI0655:K+-dependent Na+/Ca+ exchanger related-protein:Na+/H+ anitporter:->->:597284..597429 146 acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: pint_PI0654_PI0655|K+-dependent Na+/Ca+ exchanger related-protein:Na+/H+ anitporter|POSITIVE:POSITIVE|[597284,597429]|146 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta acgttctgcaacagctaccgccccttcggtgaggcggtctgcgccccacaacacgatggcaatgcctgcgataatgaagataatattcaatagcatatatgtttaatattaattttattacgtttttaaaatagccttcagcctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGUUCUGCAACAGCUACCGCCCCUUCGGUGAGGCGGUCUGCGCCCCACAACACGAUGGCAAUGCCUGCGAUAAUGAAGAUAAUAUUCAAUAGCAUAUAUGUUUAAUAUUAAUUUUAUUACGUUUUUAAAAUAGCCUUCAGCCUUA ..(((.((.....((.((((((((....).).))))))..))....)).)))..((.(((.((....(((.((((((((.(((((((.((((.......)))).))))))).))))))))))).......)).))).))....... (-36.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGCUGAAGGCUAUUUUAAAAACGUAAUAAAAUUAAUAUUAAACAUAUAUGCUAUUGAAUAUUAUCUUCAUUAUCGCAGGCAUUGCCAUCGUGUUGUGGGGCGCAGACCGCCUCACCGAAGGGGCGGUAGCUGUUGCAGAACGU ...(((.....(((............(((((.......)))))........(((((.((((.......)))).))..))))))...))).....(((.((.(((((..((((((((......)))))))).)).))).)).))).. (-34.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 442 50 2 71 10 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 425 70 23 48 10 pint:PI0258|5end_conjugative_transposon_protein,_TraG_249722..249952_POSITIVE 422 57 14 79 18 pint:PI1767|5end_fructokinase,_pfkB_family_1694285..1694515_POSITIVE 420 49 2 158 112 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 399 69 26 43 4 pint:PI1933|5end_hypothetical_protein_1879925..1880155_POSITIVE 399 44 2 83 35 pint:PI0705|5end_conserved_hypothetical_protein;_possible_lipoprotein_641274..641504_POSITIVE 398 70 22 76 16 pint:PI0814|5end_conserved_hypothetical_protein_752946..753176_POSITIVE 388 66 26 104 51 pint:PI1468|5end_conserved_hypothetical_protein;_probable_TPR_domain_protein_1393900..1394130_POSITIVE 376 60 20 215 169 pint:PI1528|5end_hypothetical_protein_1449685..1449915_POSITIVE 376 38 2 61 24 pint:PI0563|5end_possible_integral_membrane_protein_510248..510478_POSITIVE 371 66 23 225 177 pint:PI2074|5end_conserved_hypothetical_protein_2033660..2033890_POSITIVE 371 60 13 193 129 pint:PI0264|5end_transfer_region-related_protein,_TraN_256494..256724_POSITIVE 370 70 24 83 28 pint:PI0188|5end_phosphomethylpyrimidine_kinase_178433..178663_POSITIVE 369 50 1 144 94 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 369 70 28 110 59 pint:PI0304|5end_hypothetical_protein_288582..288812_POSITIVE 369 60 14 231 174 pint:PI0250|5end_hypothetical_protein_246946..247176_POSITIVE 367 42 1 206 158 pint:PI0817|5end_glycosyl_transferase,_group_1_family_protein_756861..757091_POSITIVE 365 45 6 129 95 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 364 55 13 148 94 pint:PI1705|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1621781..1622011_POSITIVE 364 72 34 221 162 pint:PI0418|5end_hypothetical_protein_386666..386896_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 442 50 2 62 1 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 425 70 23 48 10 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 422 57 14 64 3 pint:PI1766|3end_sugar_transporter,_possible_glucose/galactose_transporter_1694350..1694500_POSITIVE 420 49 2 148 102 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 399 44 2 93 45 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE 376 60 11 146 103 pint:PI0667|3end_hypothetical_protein_610477..610627_POSITIVE 371 53 19 98 65 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE 366 47 2 146 94 pint:PI2096|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2050884..2051034_POSITIVE 365 45 6 132 98 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 362 55 11 86 42 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 360 50 1 141 89 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 359 60 13 88 36 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 359 58 14 124 73 pint:PI1065|3end_hypothetical_protein_983650..983800_POSITIVE 356 66 25 55 3 pint:PI0053|3end_hypothetical_protein_55124..55274_POSITIVE 347 70 25 142 100 pint:PI1554|3end_hypothetical_protein_1470483..1470633_POSITIVE 347 46 19 29 2 pint:PI1246|3end_conserved_hypothetical_protein;_possible_lipoprotein_1171496..1171646_POSITIVE 346 79 33 74 30 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE 342 47 2 80 28 pint:PI1621|3end_hypothetical_protein_1545740..1545890_POSITIVE 342 44 2 76 36 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 341 78 32 49 6 pint:PI1483|3end_hypothetical_protein_1404674..1404824_POSITIVE