Origin IGS: gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agttttgtgttttttgaaatcagttatttattcgcatccggtattcagcgtgcagtcatcgacaaataaacattcatattcatccttaaatccgcaacatcatgattttagtataattataaacacctgagcaacttttttgttgctcaggattttgtc Mask Tandem Repeat Region ================================================ gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Find is-nt database================================================ Query_seq: TF1984:TF1985|TF1984:TF1985:conserved hypothetical protein:surface antigen BspA:->->:2135640..2135798 159 gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1984:TF1985|TF1984:TF1985:conserved hypothetical protein:surface antigen BspA:->->:2135640..2135798 159 gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1984:TF1985|TF1984:TF1985:conserved hypothetical protein:surface antigen BspA:->->:2135640..2135798 159 gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 33 End: 155 ................................ T N I I I S F D H H Q P N L S S Y S H K N T S S Q V S F V P H S Y I V S K L F C M .... gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact 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================================================ gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1984:TF1985|TF1984:TF1985:conserved hypothetical protein:surface antigen BspA:->->:2135640..2135798 159 gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Intra-Species Hit: Count: 1 Min: 1 Max: 159 Len: 159 Subject: tfor_TF1984_TF1985|conserved hypothetical protein:surface antigen BspA|POSITIVE:POSITIVE|[2135640,2135798]|159 HSP 1 e-value: 2.0E-85 bit: 315.0 Len: 159 Query Start:1 Query End:159 Subject Strand: POSITIVE Subject Start: 1 Subject End: 159 gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact gacaaaatcctgagcaacaaaaaagttgctcaggtgtttataattatactaaaatcatgatgttgcggatttaaggatgaatatgaatgtttatttgtcgatgactgcacgctgaataccggatgcgaataaataactgatttcaaaaaacacaaaact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACAAAAUCCUGAGCAACAAAAAAGUUGCUCAGGUGUUUAUAAUUAUACUAAAAUCAUGAUGUUGCGGAUUUAAGGAUGAAUAUGAAUGUUUAUUUGUCGAUGACUGCACGCUGAAUACCGGAUGCGAAUAAAUAACUGAUUUCAAAAAACACAAAACU ((((((..((((((((((......)))))))))).(((((((.((((.((.(((((.((......))))))).)).)))).))))))).....))))))......((((..(((.....))).))))................................ (-37.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUUUGUGUUUUUUGAAAUCAGUUAUUUAUUCGCAUCCGGUAUUCAGCGUGCAGUCAUCGACAAAUAAACAUUCAUAUUCAUCCUUAAAUCCGCAACAUCAUGAUUUUAGUAUAAUUAUAAACACCUGAGCAACUUUUUUGUUGCUCAGGAUUUUGUC .((((...(((..(((((((((...........((((.(........).)))).(((...))).......................................)))))))))...)))...)))).((((((((((......))))))))))........ (-33.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 306 128 83 136 69 tfor:TF1745|5end_hypothetical_protein_1879154..1879384_POSITIVE 301 107 62 100 47 tfor:TF2200|5end_outer_membrane_protein,_TonB_dependent_receptor_2376495..2376725_POSITIVE 296 129 90 229 192 tfor:TF2949|5end_dihydroxynaphthoate_synthase_(naphthoate_synthase)_3156578..3156808_POSITIVE 295 123 85 102 49 tfor:TF2192|5end_possible__outer_membrane_protein_2366392..2366622_POSITIVE 294 127 81 130 75 tfor:TF1065|5end_conserved_hypothetical_protein_1135313..1135543_POSITIVE 289 130 93 213 167 tfor:TF2637|5end_conserved_hypothetical_protein_2807144..2807374_POSITIVE 288 139 96 97 53 tfor:TF2668|5end_hypothetical_protein_2842471..2842701_POSITIVE 287 140 97 59 14 tfor:TF1746|5end_histidine_ammonia-lyase_1879529..1879759_POSITIVE 285 125 82 59 9 tfor:TF1012|5end_lysyl-tRNA_synthetase_(lysine--tRNA_ligase)_1068243..1068473_POSITIVE 281 127 84 201 148 tfor:TF3132|5end_conserved_hypothetical_protein_3365175..3365405_POSITIVE 281 123 85 88 50 tfor:TF2281|5end_hypothetical_protein_2439574..2439804_POSITIVE 278 125 88 164 122 tfor:TF2450|5end_outer_membrane_protein_2626471..2626701_POSITIVE 276 137 96 95 42 tfor:TF1579|5end_hypothetical_protein_1686889..1687119_POSITIVE 276 128 96 54 17 tfor:TF0855|5end_membrane_protein,_possible_exporter_905870..906100_POSITIVE 275 127 87 62 16 tfor:TF1931|5end_ATPase/GTPase_2078123..2078353_POSITIVE 275 140 96 124 78 tfor:TF0634|5end_hypothetical_protein_668120..668350_POSITIVE 273 128 91 87 45 tfor:TF0051|5end_hypothetical_protein_57327..57557_POSITIVE 273 116 74 106 63 tfor:TF0011|5end_conserved_hypothetical_protein_4685..4915_POSITIVE 272 140 95 71 30 tfor:TF2243|5end_possible_mobilization_protein_2417384..2417614_POSITIVE 272 130 97 41 8 tfor:TF1475|5end_glucose-6-phosphate_1-dehydrogenase_1568034..1568264_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 125 86 148 103 tfor:TF0983|3end_nitroreductase_family_protein,__possible_NADH_dehydrogenase/NAD(P)H_nitroreductase_1040034..1040184_POSITIVE 306 128 83 120 53 tfor:TF1744|3end_phenylacetate-CoA_ligase_1879218..1879368_POSITIVE 302 37 9 89 57 tfor:TF1984|3end_conserved_hypothetical_protein_2135579..2135729_POSITIVE 294 127 81 119 64 tfor:TF1064|3end_ampG_permease_1135382..1135532_POSITIVE 289 130 93 88 42 tfor:TF2636|3end_glutaminase_2807099..2807249_POSITIVE 287 140 97 52 7 tfor:TF1745|3end_hypothetical_protein_1879602..1879752_POSITIVE 278 127 83 77 35 tfor:TF0724|3end_possible_transcriptional_regulator_776333..776483_POSITIVE 275 127 87 62 16 tfor:TF1930|3end_two-component_response_regulator_2078203..2078353_POSITIVE 275 140 96 75 29 tfor:TF0632|3end_hypothetical_protein_668151..668301_POSITIVE 273 116 74 131 88 tfor:TF0010|3end_conserved_hypothetical_protein_4790..4940_POSITIVE 272 130 97 50 17 tfor:TF1474|3end_6-phosphogluconolactonase_1568123..1568273_POSITIVE 272 131 94 127 88 tfor:TF0041|3end_outer_membrane_protein,_TonB_dependent_receptor_45942..46092_POSITIVE 270 126 83 130 93 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 270 129 83 132 79 tfor:TF1041|3end_dihydroorotate_dehydrogenase,_catalytic_subunit_1103020..1103170_POSITIVE 267 128 90 83 48 tfor:TF0618|3end_shikimate_5-dehydrogenase_654023..654173_POSITIVE 266 127 84 138 98 tfor:TF2774|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959719..2959869_POSITIVE 265 129 85 85 36 tfor:TF1932|3end_pigmentation_and_extracellular_proteinase_regulator_2079755..2079905_POSITIVE 262 107 61 142 94 tfor:TF0033|3end_outer_membrane_protein_32603..32753_POSITIVE 260 129 83 59 8 tfor:TF0431|3end_hypothetical_protein_452470..452620_POSITIVE 260 129 83 92 41 tfor:TF0430|3end_hypothetical_protein_452503..452653_POSITIVE