Origin IGS: taaacgagaatggagaagataaatgccattatcactggtatcggcggctatgtacccgactatgtcctcaccaacgaggaattgtcgcgtatggtcgacaccaccgatgaatggattatggaacgtgtgggcatcaaggaacgccgtatcttaaccgaggagggacttggtacaagctat .........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 atagcttgtaccaagtccctcctcggttaagatacggcgttccttgatgcccacacgttccataatccattcatcggtggtgtcgaccatacgcgacaattcctcgttggtgaggacatagtcgggtacatagccgccgataccagtgataatggcatttatcttctccattctcgttta Mask Tandem Repeat Region ================================================ taaacgagaatggagaagataaatgccattatcactggtatcggcggctatgtacccgactatgtcctcaccaacgaggaattgtcgcgtatggtcgacaccaccgatgaatggattatggaacgtgtgggcatcaaggaacgccgtatcttaaccgaggagggacttggtacaagctat Find is-nt database================================================ Query_seq: PI1704:PI1705|PI1704:PI1705:50S ribosomal protein L32:3-oxoacyl-(acyl-carrier-protein) synthase III:->->:1621741..1621920 180 taaacgagaatggagaagataaatgccattatcactggtatcggcggctatgtacccgactatgtcctcaccaacgaggaattgtcgcgtatggtcgacaccaccgatgaatggattatggaacgtgtgggcatcaaggaacgccgtatcttaaccgaggagggacttggtacaagctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1704:PI1705|PI1704:PI1705:50S ribosomal protein L32:3-oxoacyl-(acyl-carrier-protein) synthase III:->->:1621741..1621920 180 taaacgagaatggagaagataaatgccattatcactggtatcggcggctatgtacccgactatgtcctcaccaacgaggaattgtcgcgtatggtcgacaccaccgatgaatggattatggaacgtgtgggcatcaaggaacgccgtatcttaaccgaggagggacttggtacaagctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 31 Max: 150 Len: 120 Subject: gi|89107937|ref|AP_001717.1| 3-oxoacyl-[acyl-carrier-protein] synthase III [Escherichia coli W3110] HSP 1 e-value: 3.0E-8 bit: 53.9 Len: 120 Query Start:31 Query End:150 Subject Strand: null Subject Start: 5 Subject End: 44 .............................. I T G I G G Y V P D Y V L T N E E L S R M V D T T D E W I M E R V G I K E R R I .............................. .............................. I I G T G S Y L P E Q V R T N A D L E K M V D T S D E W I V T R T G I R E R H I .............................. Find nr database================================================ Query_seq: PI1704:PI1705|PI1704:PI1705:50S ribosomal protein L32:3-oxoacyl-(acyl-carrier-protein) synthase III:->->:1621741..1621920 180 taaacgagaatggagaagataaatgccattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaaccgaggagggacttggtacaagctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacgagaatggagaagataaatgccattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaaccgaggagggacttggtacaagctat Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 23 End: 151 ...................... M P L S L V S A A M Y P T M S S P T R N C R V W S T P P M N G L W N V W A S R N A V S ............................. Protein_Len: 57 Strand: + Start: 10 End: 180 ......... M E K I N A I I T G I G G Y V P D Y V L T N E E L S R M V D T T D E W I M E R V G I K E R R I L T E E G L G T S Y Protein_Len: 36 Strand: - Start: 1 End: 108 L R S H L L Y I G N D S T D A A I Y G V I D E G V L F Q R T H D V G G M ........................................................................ taaacgagaatggagaagataaatgccattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaaccgaggagggacttggtacaagctat 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================================================ taaacgagaatggagaagataaatgccattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaaccgaggagggacttggtacaagctat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 43 HP_score: -3.6 Tail_Score: -2.78384 Start: 55 End: 89 Full_Region: ATCGGCGGCTATGTA CCCGACTATGTCCTC ACCAAC GAGGAATTGTCGCG TATGGTCGACACCAC ......................................................CCCGACTATGTCCTCACCAACGAGGAATTGTCGCG........................................................................................... Find igs database================================================ Query_seq: PI1704:PI1705|PI1704:PI1705:50S ribosomal protein L32:3-oxoacyl-(acyl-carrier-protein) synthase III:->->:1621741..1621920 180 taaacgagaatggagaagataaatgccattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaaccgaggagggacttggtacaagctat Intra-Species Hit: Count: 1 Min: 1 Max: 180 Len: 180 Subject: pint_PI1704_PI1705|50S ribosomal protein L32:3-oxoacyl-(acyl-carrier-protein) synthase III|POSITIVE:POSITIVE|[1621741,1621920]|180 HSP 1 e-value: 3.0E-8 bit: 60.0 Len: 30 Query Start:1 Query End:30 Subject Strand: POSITIVE Subject Start: 1 Subject End: 30 taaacgagaatggagaagataaatgccatt...................................................................................................................................................... taaacgagaatggagaagataaatgccatt...................................................................................................................................................... HSP 2 e-value: 3.0E-8 bit: 60.0 Len: 30 Query Start:151 Query End:180 Subject Strand: POSITIVE Subject Start: 151 Subject End: 180 ......................................................................................................................................................ttaaccgaggagggacttggtacaagctat ......................................................................................................................................................ttaaccgaggagggacttggtacaagctat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACGAGAAUGGAGAAGAUAAAUGCCAUUAUCACUGGUAUCGGCGGCUAUGUACCCGACUAUGUCCUCACCAACGAGGAAUUGUCGCGUAUGGUCGACACCACCGAUGAAUGGAUUAUGGAACGUGUGGGCAUCAAGGAACGCCGUAUCUUAACCGAGGAGGGACUUGGUACAAGCUAU .....((.(((((............))))).))...((((.(((((.....((((.((((....(((((......)))))...)))).)))).(((.((((..((.((((.....))))))...)))).))).........)))))))))...((((((......))))))......... (-52.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAGCUUGUACCAAGUCCCUCCUCGGUUAAGAUACGGCGUUCCUUGAUGCCCACACGUUCCAUAAUCCAUUCAUCGGUGGUGUCGACCAUACGCGACAAUUCCUCGUUGGUGAGGACAUAGUCGGGUACAUAGCCGCCGAUACCAGUGAUAAUGGCAUUUAUCUUCUCCAUUCUCGUUUA ...(((((...)))))........((..((((((.((((((....))))))...............(((((.((((.((((((((........((((.((((((((....)))))).)).))))(((.....)))..)))))))).)))))))))....))))))..))........... (-51.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 455 96 55 96 50 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 392 77 31 66 15 pint:PI0814|5end_conserved_hypothetical_protein_752946..753176_POSITIVE 387 167 124 57 12 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 379 139 96 53 1 pint:PI0792|5end_conserved_hypothetical_protein_729068..729298_POSITIVE 376 69 24 112 68 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 376 147 102 57 7 pint:PI0028|5end_aminopeptidase_31559..31789_POSITIVE 355 64 21 109 59 pint:PI0824|5end_large_conductance_mechanosensitive_channel_protein_763337..763567_POSITIVE 355 86 43 209 165 pint:PI0784|5end_possible_amidase_enhancer_precursor_721892..722122_POSITIVE 353 87 43 183 144 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 350 168 125 201 161 pint:PI0370|5end_conserved_hypothetical_protein_340453..340683_POSITIVE 349 60 11 134 64 pint:PI0432|5end_hypothetical_protein_404781..405011_POSITIVE 349 60 11 77 7 pint:PI0433|5end_hypothetical_protein_404724..404954_POSITIVE 345 146 101 72 28 pint:PI0273|5end_hypothetical_protein_262956..263186_POSITIVE 343 90 41 61 5 pint:PI0129|5end_hypothetical_protein_121709..121939_POSITIVE 339 170 123 87 42 pint:PI0384|5end_probable_radical_SAM_domain_protein_352884..353114_POSITIVE 337 100 56 90 38 pint:PI0718|5end_hypothetical_protein_653725..653955_POSITIVE 336 99 61 177 134 pint:PI2079|5end_conserved_hypothetical_protein;_possible_ATPase_2036715..2036945_POSITIVE 333 166 123 185 125 pint:PI1708|5end_hypothetical_protein_1625087..1625317_POSITIVE 332 75 34 223 173 pint:PI2011|5end_hypothetical_protein_1970429..1970659_POSITIVE 330 80 36 70 24 pint:PI0282|5end_hypothetical_protein_266540..266770_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 414 148 106 150 97 pint:PI1378|3end_GTP-binding_protein_lepA_1301651..1301801_POSITIVE 401 139 92 111 53 pint:PI0790|3end_hypothetical_protein_729206..729356_POSITIVE 376 69 24 54 10 pint:PI0094|3end_protoporphyrinogen_oxidase_90511..90661_POSITIVE 368 136 102 148 96 pint:PI0130|3end_hypothetical_protein_122267..122417_POSITIVE 350 168 125 77 37 pint:PI0369|3end_hypothetical_protein_340409..340559_POSITIVE 350 169 123 103 49 pint:PI0301|3end_probable_transposase_285982..286132_POSITIVE 343 90 41 98 42 pint:PI0128|3end_dipeptidase,_pathogenicity_island-encoded_protein_D_121826..121976_POSITIVE 339 89 42 139 100 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 333 88 43 51 3 pint:PI1223|3end_conserved_hypothetical_protein_1144459..1144609_POSITIVE 332 147 104 73 31 pint:PI1437|3end_hypothetical_protein_1356407..1356557_POSITIVE 330 80 36 54 8 pint:PI0281|3end_conserved_hypothetical_protein_266604..266754_POSITIVE 324 76 38 139 89 pint:PI0955|3end_conserved_hypothetical_protein_886084..886234_POSITIVE 322 117 75 76 29 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 311 138 103 141 109 pint:PI1416|3end_cation-transporting_ATPase_1336190..1336340_POSITIVE 310 170 125 60 19 pint:PI1365|3end_conserved_hypothetical_protein;_probable_transmembrane_protein_1285675..1285825_POSITIVE 310 158 113 119 70 pint:PI0421|3end_hypothetical_protein_387774..387924_POSITIVE 307 89 46 149 96 pint:PI0726|3end_hypothetical_protein_659253..659403_POSITIVE 305 170 124 73 36 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 304 90 42 76 26 pint:PI0220|3end_conserved_hypothetical_protein_212341..212491_POSITIVE 299 87 41 150 106 pint:PI0351|3end_hypothetical_protein_324768..324918_POSITIVE