Origin IGS: atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 gatgttcctctgattaaattgtagtcgcagagagcattatattcctcgctgtagtcgcatacaagagggcttgagccttacaagcataaagaaaggcactcatcagtaacctgttttgaattttagacaatttggtctcatgcgggatataaattatcggctgatttaagtcgagtaacccccaagcagaaaactgtgtcgcgtgtttacaagataatgaaattaaaggttatgacagccaaaccgtagcatatcactaaacgcccttttgagaaagaaaccttagatgattgggcgaaactttcggtagat Mask Tandem Repeat Region ================================================ atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Find is-nt database================================================ Query_seq: AA01903:AA01904|AA01903:AA01904:hypothetical protein:hypothetical protein:->->:1284276..1284587 312 atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01903:AA01904|AA01903:AA01904:hypothetical protein:hypothetical protein:->->:1284276..1284587 312 atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01903:AA01904|AA01903:AA01904:hypothetical protein:hypothetical protein:->->:1284276..1284587 312 atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 90 End: 296 ......................................................................................... M S L S C K H A T Q F S A W G L L D L N Q P I I Y I P H E T K L S K I Q N R L L M S A F L Y A C K A Q A L L Y A T T A R ................ Protein_Len: 39 Strand: - Start: 67 End: 183 .................................................................. P K A T M V K L K M I K Y V R S V T K Q K P T V R S L D A S L K Y G A H S W M ................................................................................................................................. atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc 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================================================ atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01903:AA01904|AA01903:AA01904:hypothetical protein:hypothetical protein:->->:1284276..1284587 312 atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Intra-Species Hit: Count: 1 Min: 1 Max: 312 Len: 312 Subject: aact_AA01903_AA01904|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1284276,1284587]|312 HSP 1 e-value: 1.0E-176 bit: 618.0 Len: 312 Query Start:1 Query End:312 Subject Strand: POSITIVE Subject Start: 1 Subject End: 312 atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc atctaccgaaagtttcgcccaatcatctaaggtttctttctcaaaagggcgtttagtgatatgctacggtttggctgtcataacctttaatttcattatcttgtaaacacgcgacacagttttctgcttgggggttactcgacttaaatcagccgataatttatatcccgcatgagaccaaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaacatc Inter-species Hit: Count: 1 Min: 179 Max: 308 Len: 130 Subject: NC_009053_APL_0494_APL_0495|Recombination-associated protein RdgC:putative DNA-methyltransferase|NEGATIVE:NEGATIVE|[562222, 565374]|3153 HSP 1 e-value: 2.0E-53 bit: 210.0 Len: 130 Query Start:179 Query End:308 Subject Strand: POSITIVE Subject Start: 1721 Subject End: 1850 ..................................................................................................................................................................................caaattgtctaaaattcaaaacaggttactgatgagtgcctttctttatgcttgtaaggctcaagccctcttgtatgcgactacagcgaggaatataatgctctctgcgactacaatttaatcagaggaa.... ..................................................................................................................................................................................caaattgtctaaaattcaaaacaggttagtgatgagtgcctttctttatacttgtaaggctcaagtcctcttgtatgcgactacatcgaggaatataatgttttctgcgactacaatttaatcagaggaa.... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAAUUGUCUAAAAUUCAAAACAGGUUACUGAUGAGUGCCUUUCUUUAUGCUUGUAAGGCUCAAGCCCUCUUGUAUGCGACUACAGCGAGGAAUAUAAUGCUCUCUGCGACUACAAUUUAAUCAGAGGAA .(((((((.............(((....)))..(((.((..........(((((.......)))))(((((((((......))))).))))........)).))).......)))))))........... (-24.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCCUCUGAUUAAAUUGUAGUCGCAGAGAGCAUUAUAUUCCUCGCUGUAGUCGCAUACAAGAGGGCUUGAGCCUUACAAGCAUAAAGAAAGGCACUCAUCAGUAACCUGUUUUGAAUUUUAGACAAUUUG ..........((((((((.......(((.((........((((..((((......)))).))))(((((.......)))))..........)).)))..(((....))).............)))))))) (-24.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 76 34 141 100 aact:AA01826|5end_iron(III)_ABC_transporter,_permease_protein_1229406..1229636_POSITIVE 297 109 62 195 142 aact:AA01928|5end_ATP-dependent_RNA_helicase_1301986..1302216_POSITIVE 293 109 64 176 130 aact:AA01911|5end_hypothetical_protein_1287791..1288021_POSITIVE 289 75 33 201 158 aact:AA02181|5end_possible_proteic_killer_active_protein_1490751..1490981_POSITIVE 288 68 21 58 20 aact:AA00309|5end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_209285..209515_POSITIVE 287 80 31 60 8 aact:AA01001|5end_conserved_hypothetical_protein_699004..699234_POSITIVE 280 89 56 56 23 aact:AA00473|5end_tryptophanyl-tRNA_synthetase_328996..329226_POSITIVE 277 109 66 165 113 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 276 89 57 45 11 aact:AA01658|5end_maltose_operon_periplasmic_protein_precursor_1124104..1124334_POSITIVE 276 80 31 135 89 aact:AA01158|5end_ribosome_associated_heat_shock_protein_15_homolog_792399..792629_POSITIVE 272 88 46 46 1 aact:AA01330|5end_LOS_biosynthesis_enzyme_(beta-1,4-galactosyltransferase)_897653..897883_POSITIVE 266 72 33 214 169 aact:AA01657|5end_maltose_high-affinity_receptor_1122735..1122965_POSITIVE 266 109 65 186 143 aact:AA01274|5end_hypothetical_protein_864519..864749_POSITIVE 265 108 62 104 56 aact:AA00574|5end_regulatory_protein_392113..392343_POSITIVE 264 91 54 224 187 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 264 88 48 186 148 aact:AA02253|5end_hypothetical_protein_1534605..1534835_POSITIVE 264 79 31 227 180 aact:AA00682|5end_S-adenosylmethionine-dependent_methyltransferase_466322..466552_POSITIVE 260 119 71 178 131 aact:AA02099|5end_50S_ribosomal_protein_L25_1429639..1429869_POSITIVE 260 80 32 79 35 aact:AA01573|5end_peptide_transport_periplasmic_protein_1059761..1059991_POSITIVE 258 70 21 111 51 aact:AA01363|5end_hypothetical_protein_922505..922735_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 76 34 148 107 aact:AA01825|3end_iron(III)_ABC_transporter,_permease_protein_1229493..1229643_POSITIVE 301 110 61 130 76 aact:AA01982|3end_maltodextrin_phosphorylase_1341854..1342004_POSITIVE 297 109 62 120 67 aact:AA01927|3end_conserved_hypothetical_protein_1301991..1302141_POSITIVE 294 70 22 147 88 aact:AA00062|3end_bicyclomycin_resistance_protein_(Sulfonamide_resistance_protein)_48030..48180_POSITIVE 293 109 64 51 5 aact:AA01909|3end_hypothetical_protein_1287746..1287896_POSITIVE 276 80 31 64 18 aact:AA01156|3end_chaperonin_heat_shock_protein_33_homolog_792408..792558_POSITIVE 266 87 48 31 1 aact:AA02564|3end_transketolase_N-terminal_section_1786783..1786933_POSITIVE 266 72 33 134 89 aact:AA01656|3end_maltose/maltodextrin_transport_ATP-binding_protein_1122735..1122885_POSITIVE 260 80 32 76 32 aact:AA01572|3end_peptide_ABC_transporter,_permease_protein_1059838..1059988_POSITIVE 258 107 62 49 5 aact:AA00455|3end_lipoprotein_precursor_319385..319535_POSITIVE 256 88 58 67 33 aact:AA00668|3end_cytolethal_distending_toxin_protein_B_459442..459592_POSITIVE 255 96 54 141 85 aact:AA02735|3end_DNA_repair_protein_1917424..1917574_POSITIVE 255 79 35 104 63 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE 255 107 76 39 9 aact:AA00236|3end_anaerobic_ribonucleoside-triphosphate_reductase_171021..171171_POSITIVE 253 110 64 86 25 aact:AA00882|3end_hypothetical_protein_613645..613795_POSITIVE 251 94 58 51 20 aact:AA02700|3end_succinyl-CoA_synthase,_alpha_subunit_1884205..1884355_POSITIVE 250 108 65 60 5 aact:AA02367|3end_conserved_hypothetical_protein_1623580..1623730_POSITIVE 247 76 45 71 37 aact:AA01149|3end_glycyl-tRNA_synthetase_beta_subunit_788185..788335_POSITIVE 246 92 58 41 4 aact:AA01476|3end_hypothetical_protein_992261..992411_POSITIVE 244 108 64 98 43 aact:AA02438|3end_membrane_protein;_possible_ABC_transporter_permease_protein_1683992..1684142_POSITIVE