Origin IGS: caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttcagaacgtggtcaaaatttatgtatctttaggaagtgtgaaagaatggacggactacgaattacttttcattagttaagaatatagtaatgttgtaaagttaatcgaggagttattg Mask Tandem Repeat Region ================================================ caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Find is-nt database================================================ Query_seq: SSA_1458:SSA_2384|SSA_1458:SSA_2384:hypothetical protein:Acetyltransferase, GNAT family, putative:<-<-:1465438..1465557 120 caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1458:SSA_2384|SSA_1458:SSA_2384:hypothetical protein:Acetyltransferase, GNAT family, putative:<-<-:1465438..1465557 120 caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1458:SSA_2384|SSA_1458:SSA_2384:hypothetical protein:Acetyltransferase, GNAT family, putative:<-<-:1465438..1465557 120 caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Predict ORF larger than 30AA ================================================ caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa 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================================================ caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1458:SSA_2384|SSA_1458:SSA_2384:hypothetical protein:Acetyltransferase, GNAT family, putative:<-<-:1465438..1465557 120 caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: NC_009009_SSA_1458_SSA_2384|hypothetical protein:Acetyltransferase, GNAT family, putative|NEGATIVE:NEGATIVE|[1465438,1465557]|120 HSP 1 e-value: 3.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa caataactcctcgattaactttacaacattactatattcttaactaatgaaaagtaattcgtagtccgtccattctttcacacttcctaaagatacataaattttgaccacgttctgaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAUAACUCCUCGAUUAACUUUACAACAUUACUAUAUUCUUAACUAAUGAAAAGUAAUUCGUAGUCCGUCCAUUCUUUCACACUUCCUAAAGAUACAUAAAUUUUGACCACGUUCUGAAA ...........(((...(((((....(((((.............))))).)))))...)))(((..(((....(((((..........)))))..((.......))...)))..)))... ( -6.12) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCAGAACGUGGUCAAAAUUUAUGUAUCUUUAGGAAGUGUGAAAGAAUGGACGGACUACGAAUUACUUUUCAUUAGUUAAGAAUAUAGUAAUGUUGUAAAGUUAAUCGAGGAGUUAUUG ........(((((((....(((((...(((((..........))))))))))..)))))))....((((((((((((((.(.(((((....))))).).)).))))).)))))))..... (-19.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 820 110 61 201 152 NC_009009:SSA_1458|5end_hypothetical_protein_1465347..1465577_NEGATIVE 261 89 47 112 63 NC_009009:SSA_1851|5end_Guanylate_kinase,_putative_1846682..1846912_NEGATIVE 244 88 64 104 77 NC_009009:SSA_0703|5end_Citrate_synthase,_putative_688154..688384_POSITIVE 241 87 54 231 194 NC_009009:SSA_1443|5end_1-(5-phosphoribosyl)-5-[(5-_phosphoribosylamino)methylideneamino]_imidazole-4-carboxamide_isomerase,_putative_1446672..1446902_NEGATIVE 237 98 64 104 65 NC_009009:SSA_0729|5end_hypothetical_protein_714397..714627_POSITIVE 228 77 37 180 143 NC_009009:SSA_0988|5end_TfoX_N-terminal_domain_family_protein,_putative_990662..990892_POSITIVE 225 88 60 33 3 NC_009009:SSA_0078|5end_N-acetylneuraminate_lyase,_putative_81904..82134_POSITIVE 222 84 54 135 105 NC_009009:SSA_0964|5end_DEAD_RNA_helicase,_putative_974114..974344_NEGATIVE 220 94 52 133 86 NC_009009:SSA_0972|5end_hypothetical_protein_979973..980203_POSITIVE 218 89 60 117 89 NC_009009:SSA_1844|5end_hypothetical_protein_1838183..1838413_NEGATIVE 214 87 58 114 77 NC_009009:SSA_1322|5end_Glycosyl_transferase,_putative_1339819..1340049_NEGATIVE 210 94 58 167 139 NC_009009:SSA_0967|5end_hypothetical_protein_975872..976102_POSITIVE 209 111 73 122 82 NC_009009:SSA_1394|5end_hypothetical_protein_1409048..1409278_NEGATIVE 209 94 51 101 41 NC_009009:SSA_0261|5end_ABC-type_Mn2+/Zn2+_transport_systems,_permease_component,_putative_255468..255698_NEGATIVE 208 90 44 183 143 NC_009009:SSA_1353|5end_hypothetical_protein_1368519..1368749_NEGATIVE 207 99 69 115 76 NC_009009:SSA_2343|5end_hypothetical_protein_2346126..2346356_NEGATIVE 207 116 71 125 89 NC_009009:SSA_1242|5end_Dihydroorotate_dehydrogenase_B,_putative_1267386..1267616_NEGATIVE 206 110 67 64 16 NC_009009:SSA_2129|5end_Arsenical_resistance_operon_transcription_repressor_(ArsR),_putative_2133308..2133538_NEGATIVE 206 79 36 192 151 NC_009009:SSA_2037|5end_tRNA_(Guanosine-2'-O-)-methyltransferase,_TrmH_family,_putative_2041524..2041754_NEGATIVE 203 87 51 103 66 NC_009009:SSA_2161|5end_NTP_pyrophosphohydrolases_including_oxidative_damage_repair_enzymes,_putative_2160600..2160830_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 88 64 101 74 NC_009009:SSA_0702|3end_Aconitase_A,_putative_688231..688381_POSITIVE 237 98 64 150 111 NC_009009:SSA_0728|3end_Protease,_putative_714523..714673_POSITIVE 222 79 31 100 33 NC_009009:SSA_0947|3end_hypothetical_protein_954876..955026_POSITIVE 220 94 52 149 102 NC_009009:SSA_0971|3end_Conserved_uncharacterized_protein_980069..980219_POSITIVE 214 87 58 145 108 NC_009009:SSA_1323|3end_hypothetical_protein_1339788..1339938_NEGATIVE 213 80 47 149 115 NC_009009:SSA_2041|3end_Leucine-rich_protein,_putative_2045807..2045957_NEGATIVE 209 111 73 125 85 NC_009009:SSA_1395|3end_hypothetical_protein_1409045..1409195_NEGATIVE 209 94 51 114 54 NC_009009:SSA_0262|3end_ABC-type_Mn/Zn_transporter,_ATP-ase_component,_putative_255455..255605_NEGATIVE 208 90 44 147 107 NC_009009:SSA_1354|3end_hypothetical_protein_1368555..1368705_NEGATIVE 207 116 71 113 77 NC_009009:SSA_1243|3end_Dihydroorotate_dehydrogenase_electron_transfer_subunit,_putative_1267398..1267548_NEGATIVE 205 86 58 124 95 NC_009009:SSA_1230|3end_Conserved_uncharacterized_protein_1252612..1252762_NEGATIVE 203 97 53 76 17 NC_009009:SSA_1350|3end_hypothetical_protein_1366945..1367095_NEGATIVE 201 99 58 132 97 NC_009009:SSA_1029|3end_hypothetical_protein_1046167..1046317_NEGATIVE 201 87 48 98 60 NC_009009:SSA_0158|3end_hypothetical_protein_155074..155224_POSITIVE 199 107 63 71 34 NC_009009:SSA_0255|3end_Multiple_antibiotic_resistance_operon_transcription_repressor_(MarR),_putative_247485..247635_NEGATIVE 193 89 48 72 21 NC_009009:SSA_1328|3end_hypothetical_protein_1344342..1344492_NEGATIVE 192 90 59 137 108 NC_009009:SSA_0583|3end_Nucleotidyltransferase,_putative_575679..575829_POSITIVE 191 87 43 133 90 NC_009009:SSA_2160|3end_Deoxyuridinetriphosphatase,_putative_2159623..2159773_NEGATIVE 190 85 43 151 105 NC_009009:SSA_0786|3end_Proton-translocating_ATPase,_F1_sector,_alpha_subunit,_putative_770181..770331_POSITIVE 188 116 77 103 70 NC_009009:SSA_2275|3end_hypothetical_protein_2275225..2275375_NEGATIVE