Origin IGS: tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca .........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 tgtcttttgcttctcctcgttttaatgataacaaataacgtgcgttttagtttaatatttattcaaaaaaggtaaaaaacacatcaccaaatcgttaataataattagtaagacaaattaaaatttcctcttctcctccatcaaaaacaatataaatctttttttatcaacaactaaaaagcacttccacaaatccatctaattgttaaaaccgagaccaaagaattctcgattcttcggtctctcaatcattttagtgtgtctattttcctgtttcaaacaccccgatatgtcggggtgcagaatca Mask Tandem Repeat Region ================================================ tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Find is-nt database================================================ Query_seq: TF3004:TF3005|TF3004:TF3005:phosphoribosylformylglycinamidine (FGAM) synthase:histidine kinase sensor protein:->->:3224637..3224944 308 tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3004:TF3005|TF3004:TF3005:phosphoribosylformylglycinamidine (FGAM) synthase:histidine kinase sensor protein:->->:3224637..3224944 308 tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3004:TF3005|TF3004:TF3005:phosphoribosylformylglycinamidine (FGAM) synthase:histidine kinase sensor protein:->->:3224637..3224944 308 tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 3 End: 107 .. M L H P D I S G C L K Q E N R H T K M I E R P K N R E F F G L G F N N ......................................................................................................................................................................................................... Protein_Len: 38 Strand: - Start: 3 End: 116 .. N Q V G V Y R P T Q F L F I S V S F H N L S R L I S F E K T E T K V I L H M ................................................................................................................................................................................................ Protein_Len: 35 Strand: - Start: 2 End: 106 . I R C G S M D P H K F C S F L C V L I I S L G F F R S N K P R P K L M .......................................................................................................................................................................................................... tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 29 End: 58 ............................TTTGAAACAGGAAAATAGACACACTAAAAT.......................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 70 HP_score: -6.5 Tail_Score: -4.1466 Start: 63 End: 97 Full_Region: CACACTAAAATGATT GAGAGACCGAAGAAT CGAGA ATTCTTTGGTCTCGG TTTTAACAATTAGAT ..............................................................GAGAGACCGAAGAATCGAGAATTCTTTGGTCTCGG................................................................................................................................................................................................................... TransTerm Strand: + Conf: 78 HP_score: -10.0 Tail_Score: -3.08314 Start: 64 End: 96 Full_Region: ACACTAAAATGATTG AGAGACCGAAGAAT CGAGA ATTCTTTGGTCTCG GTTTTAACAATTAGA ...............................................................AGAGACCGAAGAATCGAGAATTCTTTGGTCTCG.................................................................................................................................................................................................................... TransTerm Strand: + Conf: 78 HP_score: -10.3 Tail_Score: -2.75349 Start: 67 End: 93 Full_Region: CTAAAATGATTGAGA GACCGAAGAAT CGAGA ATTCTTTGGTC TCGGTTTTAACAATT ..................................................................GACCGAAGAATCGAGAATTCTTTGGTC....................................................................................................................................................................................................................... Find igs database================================================ Query_seq: TF3004:TF3005|TF3004:TF3005:phosphoribosylformylglycinamidine (FGAM) synthase:histidine kinase sensor protein:->->:3224637..3224944 308 tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtgttttttaccttttttgaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Intra-Species Hit: Count: 1 Min: 1 Max: 308 Len: 308 Subject: tfor_TF3004_TF3005|phosphoribosylformylglycinamidine (FGAM) synthase:histidine kinase sensor protein|POSITIVE:POSITIVE|[3224637,3224944]|308 HSP 1 e-value: 1.0E-114 bit: 412.0 Len: 229 Query Start:1 Query End:229 Subject Strand: POSITIVE Subject Start: 1 Subject End: 229 tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgatnnnnnnngatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtg............................................................................... tgattctgcaccccgacatatcggggtgtttgaaacaggaaaatagacacactaaaatgattgagagaccgaagaatcgagaattctttggtctcggttttaacaattagatggatttgtggaagtgctttttagttgttgataaaaaaagatttatattgtttttgatggaggagaagaggaaattttaatttgtcttactaattattattaacgatttggtgatgtg............................................................................... HSP 2 e-value: 2.0E-28 bit: 127.0 Len: 64 Query Start:245 Query End:308 Subject Strand: POSITIVE Subject Start: 245 Subject End: 308 ....................................................................................................................................................................................................................................................gaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca ....................................................................................................................................................................................................................................................gaataaatattaaactaaaacgcacgttatttgttatcattaaaacgaggagaagcaaaagaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUCUGCACCCCGACAUAUCGGGGUGUUUGAAACAGGAAAAUAGACACACUAAAAUGAUUGAGAGACCGAAGAAUCGAGAAUUCUUUGGUCUCGGUUUUAACAAUUAGAUGGAUUUGUGGAAGUGCUUUUUAGUUGUUGAUAAAAAAAGAUUUAUAUUGUUUUUGAUGGAGGAGAAGAGGAAAUUUUAAUUUGUCUUACUAAUUAUUAUUAACGAUUUGGUGAUGUGUUUUUUACCUUUUUUGAAUAAAUAUUAAACUAAAACGCACGUUAUUUGUUAUCAUUAAAACGAGGAGAAGCAAAAGACA ((.(((.(((((((((....)))))))))..))).))..........(((((((...((((((.(((((((((((((.....)))))))))))))........))))))..)))...))))....((((((((.(((..((((((............((((((..((((((...((((((.(((.......))).)))).))..))))))..))))))..((((((((((.(((((.....(((((.......))))).))))).))))))))))..))))))....)))...))))))))....... (-78.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUCUUUUGCUUCUCCUCGUUUUAAUGAUAACAAAUAACGUGCGUUUUAGUUUAAUAUUUAUUCAAAAAAGGUAAAAAACACAUCACCAAAUCGUUAAUAAUAAUUAGUAAGACAAAUUAAAAUUUCCUCUUCUCCUCCAUCAAAAACAAUAUAAAUCUUUUUUUAUCAACAACUAAAAAGCACUUCCACAAAUCCAUCUAAUUGUUAAAACCGAGACCAAAGAAUUCUCGAUUCUUCGGUCUCUCAAUCAUUUUAGUGUGUCUAUUUUCCUGUUUCAAACACCCCGAUAUGUCGGGGUGCAGAAUCA ....((((((...............(((.((((......((((.((((((((.....(((.....)))..(((((((((...............(((((....))))).((((..((.......))..))))...........................)))))))))...)))))))).))))...((((....((......))........((((((.(((((((...))))))).)))))).............))))..........)))))))...(((((((....)))))))))))))... (-51.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 29 4 69 42 tfor:TF1974|5end_glyoxalase_I_related_protein_(lactoylglutathione_lyase)_2120950..2121180_POSITIVE 294 41 5 77 42 tfor:TF2689|5end_hypothetical_protein_2864824..2865054_POSITIVE 293 106 65 72 32 tfor:TF2407|5end_glycosyltransferase_2581574..2581804_POSITIVE 285 33 4 54 18 tfor:TF1017|5end_30S_ribsomal_protein_S18_1074510..1074740_POSITIVE 280 129 83 191 135 tfor:TF1901|5end_conserved_hypothetical_protein_2056467..2056697_POSITIVE 280 94 57 151 108 tfor:TF0986|5end_50S_ribosomal_protein_L31_1041426..1041656_POSITIVE 280 39 3 59 19 tfor:TF0025|5end_hypothetical_protein_21659..21889_POSITIVE 276 37 1 219 174 tfor:TF2301|5end_outer_membrane_protein,_TonB_dependent_receptor_2453288..2453518_POSITIVE 266 29 4 44 20 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 265 49 6 212 162 tfor:TF0652|5end_conserved_hypothetical_protein_694292..694522_POSITIVE 264 38 1 203 164 tfor:TF1874|5end_conserved_hypothetical_protein_2028060..2028290_POSITIVE 264 300 264 63 24 tfor:TF1472|5end_acyl-ACP_thioesterase_1565475..1565705_POSITIVE 264 38 1 203 164 tfor:TF1132|5end_conserved_hypothetical_protein_1208926..1209156_POSITIVE 263 41 5 222 182 tfor:TF1047|5end_tRNA_pseudouridylate_synthetase_A_(pseudouridylate_synthase_I)_1108483..1108713_POSITIVE 262 40 5 65 22 tfor:TF2842|5end_methyltransferase_3032094..3032324_POSITIVE 261 48 6 85 30 tfor:TF2038|5end_hypothetical_protein_2198978..2199208_POSITIVE 259 43 8 87 38 tfor:TF2429|5end_ABC_transporter,_ATP-binding/permease_component,_bacteriocin/lantibiotic_exporter_2610453..2610683_POSITIVE 259 29 5 46 11 tfor:TF1313|5end_conserved_hypothetical_protein_1388880..1389110_POSITIVE 258 32 1 187 150 tfor:TF0817|5end_ribonuclease,_BN-like_family_874400..874630_POSITIVE 257 27 7 50 30 tfor:TF2223|5end_CTn_excision__protein_2394247..2394477_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 29 4 29 2 tfor:TF1973|3end_propionyl-CoA_carboxylase,_beta_subunit_2120990..2121140_POSITIVE 294 41 5 135 100 tfor:TF2687|3end_iron-regulated_ABC-type_transporter_membrane_component_2864962..2865112_POSITIVE 293 38 1 91 54 tfor:TF3004|3end_phosphoribosylformylglycinamidine_(FGAM)_synthase_3224576..3224726_POSITIVE 293 106 65 77 37 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 289 125 86 150 110 tfor:TF3080|3end_conserved_hypothetical_protein_3314423..3314573_POSITIVE 289 125 86 150 110 tfor:TF1458|3end_conserved_hypothetical_protein_1548381..1548531_POSITIVE 285 33 4 48 12 tfor:TF1016|3end_30S_ribosomal_protein_S6_1074584..1074734_POSITIVE 280 94 57 69 26 tfor:TF0984|3end_possible_mucin-desulfating_sulfatase_(MdsC_protein)_1041424..1041574_POSITIVE 263 41 5 105 65 tfor:TF1046|3end_hypothetical_protein_1108446..1108596_POSITIVE 262 40 5 47 4 tfor:TF2841|3end_conserved_hypothetical_protein_3032156..3032306_POSITIVE 259 43 8 79 30 tfor:TF2428|3end_conserved_hypothetical_protein_2610525..2610675_POSITIVE 255 42 8 67 20 tfor:TF2426|3end_conserved_hypothetical_protein;_possible_TonB_receptor_2605931..2606081_POSITIVE 254 48 7 79 36 tfor:TF1397|3end_glucosyltransferase_1471534..1471684_POSITIVE 253 35 1 48 8 tfor:TF2124|3end_conserved_hypothetical_protein;_possible_TonB_dependent_receptor_2302191..2302341_POSITIVE 251 104 62 135 92 tfor:TF3072|3end_conserved_hypothetical_protein_3296083..3296233_POSITIVE 250 124 86 96 55 tfor:TF0914|3end_conserved_hypothetical_protein;_possible_ketosteroid_isomerase-related_protein_955813..955963_POSITIVE 247 50 1 97 42 tfor:TF2332|3end_signal_peptidase_I_2492613..2492763_POSITIVE 246 50 1 79 31 tfor:TF1880|3end_transposase_2033405..2033555_POSITIVE 243 101 63 68 34 tfor:TF2782|3end_conserved_hypothetical_protein_2967356..2967506_POSITIVE 243 50 6 38 1 tfor:TF0440|3end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_2_464688..464838_POSITIVE