Origin IGS: tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cccctttttactttagccgggtgcaaatatacaataaatcagcctttttaccaagaaaaaaagcacaaatttattgctttacttttcaaaacaactaaaacaaactaataatcaataaaataaaatatcgactcgttttttcatcgcttcttttttgta Mask Tandem Repeat Region ================================================ tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg Find is-nt database================================================ Query_seq: TF2680:TF2681|TF2680:TF2681:conserved hypothetical protein:conserved hypothetical protein:->->:2855777..2855935 159 tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2680:TF2681|TF2680:TF2681:conserved hypothetical protein:conserved hypothetical protein:->->:2855777..2855935 159 tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2680:TF2681|TF2680:TF2681:conserved hypothetical protein:conserved hypothetical protein:->->:2855777..2855935 159 tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg Predict ORF larger than 30AA ================================================ tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg 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: 105 End: 134 ........................................................................................................CTTGGTAAAAAGGCTGATTTATTGTATATT......................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2680:TF2681|TF2680:TF2681:conserved hypothetical protein:conserved hypothetical protein:->->:2855777..2855935 159 tacaaaaaagaagcgatgaaaaaacgagtcgatattttattttattgattattagtttgttttagttgttttgaaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg Intra-Species Hit: Count: 1 Min: 1 Max: 159 Len: 159 Subject: tfor_TF2680_TF2681|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2855777,2855935]|159 HSP 1 e-value: 3.0E-29 bit: 129.0 Len: 86 Query Start:74 Query End:159 Subject Strand: POSITIVE Subject Start: 74 Subject End: 159 .........................................................................aaaagtaaagcaataaatttgtgcnnnnnnncttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg .........................................................................aaaagtaaagcaataaatttgtgctttttttcttggtaaaaaggctgatttattgtatatttgcacccggctaaagtaaaaagggg HSP 2 e-value: 1.0E-9 bit: 63.9 Len: 32 Query Start:1 Query End:32 Subject Strand: POSITIVE Subject Start: 1 Subject End: 32 tacaaaaaagaagcgatgaaaaaacgagtcga............................................................................................................................... tacaaaaaagaagcgatgaaaaaacgagtcga............................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACAAAAAAGAAGCGAUGAAAAAACGAGUCGAUAUUUUAUUUUAUUGAUUAUUAGUUUGUUUUAGUUGUUUUGAAAAGUAAAGCAAUAAAUUUGUGCUUUUUUUCUUGGUAAAAAGGCUGAUUUAUUGUAUAUUUGCACCCGGCUAAAGUAAAAAGGGG .........((((((((....((((.((((((((........))))))))....))))......)))))))).....(((((((((((((((...((((((((.......)))))))).))))))))))...))))).(((.((....)).....))). (-36.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCCCUUUUUACUUUAGCCGGGUGCAAAUAUACAAUAAAUCAGCCUUUUUACCAAGAAAAAAAGCACAAAUUUAUUGCUUUACUUUUCAAAACAACUAAAACAAACUAAUAAUCAAUAAAAUAAAAUAUCGACUCGUUUUUUCAUCGCUUCUUUUUUGUA .(((..............)))........(((((.(((..(((...........(((((((((((.........))))))..)))))........................((.(((........))).))..............)))..))).))))) (-13.24) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 295 149 103 132 87 tfor:TF0759|5end_heat_shock_protein_15,_RNA-binding_domain_S4_805870..806100_POSITIVE 281 120 72 145 84 tfor:TF0780|5end_alpha-L-arabinofuranosidase,_precursor_A_831944..832174_POSITIVE 254 144 101 46 3 tfor:TF0860|5end_conserved_hypothetical_protein_912765..912995_POSITIVE 244 145 104 205 161 tfor:TF0815|5end_conserved_hypothetical_protein_873199..873429_POSITIVE 238 120 72 185 125 tfor:TF2321|5end_hypothetical_protein_2482347..2482577_POSITIVE 230 145 106 161 123 tfor:TF1712|5end_conserved_hypothetical_protein_1832392..1832622_POSITIVE 229 145 104 200 163 tfor:TF1794|5end_possible_glucose-1-phosphatase_1934453..1934683_POSITIVE 229 119 90 146 118 tfor:TF0448|5end_hypothetical_protein_467664..467894_POSITIVE 226 118 75 62 18 tfor:TF2487|5end_transposase_2663010..2663240_POSITIVE 225 145 111 164 134 tfor:TF0783|5end_periplasmic_TonB_membrane-linking_protein_836552..836782_POSITIVE 221 144 101 110 69 tfor:TF0065|5end_conserved_hypothetical_protein_70274..70504_POSITIVE 220 145 102 193 157 tfor:TF2925|5end_beta-N-acetylglucosaminidase_3125700..3125930_POSITIVE 220 150 101 159 107 tfor:TF2690|5end_possible_permease_2865466..2865696_POSITIVE 220 149 104 113 66 tfor:TF2499|5end_possible_thioesterase_family_protein_2673903..2674133_POSITIVE 220 147 117 143 97 tfor:TF1945|5end_glycerate_dehydrogenase_2093229..2093459_POSITIVE 220 60 14 108 62 tfor:TF0818|5end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_876002..876232_POSITIVE 219 144 105 227 189 tfor:TF1959|5end_conserved_hypothetical_protein_2109377..2109607_POSITIVE 216 150 117 207 164 tfor:TF2025|5end_hypothetical_protein_2181933..2182163_POSITIVE 216 144 103 150 99 tfor:TF0119|5end_gluconate_aldolase_130577..130807_POSITIVE 215 137 100 44 12 tfor:TF2634|5end_conserved_hypothetical_protein_2803844..2804074_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 295 149 103 132 87 tfor:TF0758|3end_peptidyl-tRNA_hydrolase_805950..806100_POSITIVE 230 49 3 119 77 tfor:TF2913|3end_conserved_hypothetical_protein_3109117..3109267_POSITIVE 229 145 104 148 111 tfor:TF1793|3end_polyphosphate-selective_porin_O_1934481..1934631_POSITIVE 225 145 111 124 94 tfor:TF0782|3end_ThiJ/PfpI_family_protein_836592..836742_POSITIVE 220 150 101 146 94 tfor:TF2689|3end_hypothetical_protein_2865533..2865683_POSITIVE 220 147 117 143 97 tfor:TF1944|3end_conserved_hypothetical_protein_2093309..2093459_POSITIVE 216 144 103 129 78 tfor:TF0118|3end_5-keto-D-gluconate_5-reductase_130636..130786_POSITIVE 214 146 106 133 81 tfor:TF0691|3end_conserved_hypothetical_protein_736452..736602_POSITIVE 213 144 104 99 56 tfor:TF2455|3end_conserved_hypothetical_protein;_possible_membrane_protein_2632437..2632587_POSITIVE 207 98 57 96 56 tfor:TF1227|3end_hypothetical_protein_1314231..1314381_POSITIVE 206 136 91 102 52 tfor:TF0970|3end_2-keto-3-deoxygluconate_kinase_1021540..1021690_POSITIVE 205 53 11 50 5 tfor:TF0957|3end_hypothetical_protein_1003879..1004029_POSITIVE 203 43 13 94 64 tfor:TF2330|3end_conserved_hypothetical_protein_2491109..2491259_POSITIVE 203 32 4 81 48 tfor:TF0843|3end_transposase_895227..895377_POSITIVE 202 129 81 140 90 tfor:TF2888|3end_50S_ribosomal_protein_L21_3078389..3078539_POSITIVE 201 145 117 134 114 tfor:TF1909|3end_cobalamin_(5`-phosphate)_synthase_2064075..2064225_POSITIVE 201 69 21 130 79 tfor:TF1304|3end_conserved_hypothetical_protein_1385678..1385828_POSITIVE 200 144 108 52 7 tfor:TF0479|3end_transcriptional_regulator_498405..498555_POSITIVE 198 118 72 150 92 tfor:TF2320|3end_hypothetical_protein_2482394..2482544_POSITIVE 197 145 106 37 4 tfor:TF1977|3end_anti-sigma_factor_2124427..2124577_POSITIVE