Origin IGS: tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaaccgggcgccggcagtgaaacggatgaaatctcgcgtgagattgattatctttgtcgcctgtttcattaattatagtcgtaaaaaagaaaacagatattgaaagaatgtatatctttgcggtctaaaaataggtttagaagatctttcataca Mask Tandem Repeat Region ================================================ tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Find is-nt database================================================ Query_seq: TF1202:TF1203|TF1202:TF1203:antitermination factor, NusB family:L-asparaginase I:->->:1285216..1285371 156 tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1202:TF1203|TF1202:TF1203:antitermination factor, NusB family:L-asparaginase I:->->:1285216..1285371 156 tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1202:TF1203|TF1202:TF1203:antitermination factor, NusB family:L-asparaginase I:->->:1285216..1285371 156 tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 41 End: 154 ........................................ M Y I L S I S V F F F T T I I N E T G D K D N Q S H A R F H P F H C R R P V .. tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca 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================================================ tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1202:TF1203|TF1202:TF1203:antitermination factor, NusB family:L-asparaginase I:->->:1285216..1285371 156 tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Intra-Species Hit: Count: 1 Min: 1 Max: 156 Len: 156 Subject: tfor_TF1202_TF1203|antitermination factor, NusB family:L-asparaginase I|POSITIVE:POSITIVE|[1285216,1285371]|156 HSP 1 e-value: 1.0E-83 bit: 309.0 Len: 156 Query Start:1 Query End:156 Subject Strand: POSITIVE Subject Start: 1 Subject End: 156 tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca tgtatgaaagatcttctaaacctatttttagaccgcaaagatatacattctttcaatatctgttttcttttttacgactataattaatgaaacaggcgacaaagataatcaatctcacgcgagatttcatccgtttcactgccggcgcccggttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUAUGAAAGAUCUUCUAAACCUAUUUUUAGACCGCAAAGAUAUACAUUCUUUCAAUAUCUGUUUUCUUUUUUACGACUAUAAUUAAUGAAACAGGCGACAAAGAUAAUCAAUCUCACGCGAGAUUUCAUCCGUUUCACUGCCGGCGCCCGGUUCA .(((.((((((...((((((......))))))......((((((...........))))))....)))))).)))............((((((.(....)..........((((((....))))))......))))))..(((((...)))))... (-28.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACCGGGCGCCGGCAGUGAAACGGAUGAAAUCUCGCGUGAGAUUGAUUAUCUUUGUCGCCUGUUUCAUUAAUUAUAGUCGUAAAAAAGAAAACAGAUAUUGAAAGAAUGUAUAUCUUUGCGGUCUAAAAAUAGGUUUAGAAGAUCUUUCAUACA ((((.((((((...((((......((((((((((((....))))))..)))))))))))))))).))))............(((..(((((((((...((((...(((.((((......)))).)))...)))).))))......)))))..))). (-32.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 363 150 112 213 174 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 344 149 113 138 101 tfor:TF1623|5end_5-formyltetrahydrofolate_cyclo-ligase_1736698..1736928_POSITIVE 341 149 112 44 3 tfor:TF0810|5end_possible_outer_membrane_efflux_protein_868438..868668_POSITIVE 339 150 109 78 42 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 338 150 113 96 50 tfor:TF2487|5end_transposase_2663010..2663240_POSITIVE 338 150 118 146 110 tfor:TF2158|5end_conserved_hypothetical_protein_2333857..2334087_POSITIVE 336 148 113 134 95 tfor:TF0684|5end_conserved_hypothetical_protein_728853..729083_POSITIVE 327 146 118 183 155 tfor:TF2159|5end_conserved_hypothetical_protein_2334446..2334676_POSITIVE 327 43 1 138 95 tfor:TF0818|5end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_876002..876232_POSITIVE 326 149 109 192 143 tfor:TF0304|5end_peptidyl-prolyl_cis-trans_isomerase_329567..329797_POSITIVE 324 148 101 163 109 tfor:TF2011|5end_transposase_2163893..2164123_POSITIVE 321 150 118 186 151 tfor:TF0593|5end_membrane-associated_phospholipid_phosphatase_626393..626623_POSITIVE 320 150 118 170 132 tfor:TF1928|5end_conserved_hypothetical_protein_2075529..2075759_POSITIVE 319 150 104 57 10 tfor:TF2548|5end_30S_ribosomal_protein_S12_2731238..2731468_POSITIVE 319 148 107 213 164 tfor:TF2497|5end_electron_transfer_flavoprotein,_beta-subunit_2671995..2672225_POSITIVE 319 148 101 150 94 tfor:TF1587|5end_conserved_hypothetical_protein_1700245..1700475_POSITIVE 318 150 120 34 1 tfor:TF2849|5end_histidinol-phosphate_transaminase_3037288..3037518_POSITIVE 317 147 114 68 32 tfor:TF0961|5end_translation_initiation_inhibitor,_endoribonuclease_activity_1010445..1010675_POSITIVE 315 150 102 78 30 tfor:TF1795|5end_conserved_hypothetical_protein_1935746..1935976_POSITIVE 313 147 104 123 71 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 149 113 123 86 tfor:TF1622|3end_conserved_hypothetical_protein_1736763..1736913_POSITIVE 341 149 112 44 3 tfor:TF0809|3end_cation_efflux_protein_868518..868668_POSITIVE 339 150 109 78 42 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 338 150 118 133 97 tfor:TF2157|3end_conserved_hypothetical_protein_2333924..2334074_POSITIVE 336 148 113 115 76 tfor:TF0683|3end_conserved_hypothetical_protein_728914..729064_POSITIVE 317 147 114 49 13 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 316 149 109 145 98 tfor:TF0596|3end_conserved_hypothetical_protein_628652..628802_POSITIVE 315 150 102 68 20 tfor:TF1794|3end_possible_glucose-1-phosphatase_1935816..1935966_POSITIVE 313 147 104 132 80 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 309 150 108 55 9 tfor:TF2552|3end_50S_ribosomal_protein_L3_2735452..2735602_POSITIVE 305 150 119 55 20 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 303 150 112 144 98 tfor:TF2231|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_2406248..2406398_POSITIVE 301 148 112 54 7 tfor:TF2834|3end_cardiolipin_synthase_3027496..3027646_POSITIVE 290 150 113 145 100 tfor:TF0752|3end_nucleotide-binding_protein;_MAF-like_protein_801713..801863_POSITIVE 289 149 115 137 99 tfor:TF2908|3end_transcriptional_regulator,_AraC_family_3104678..3104828_POSITIVE 288 147 103 53 3 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 286 148 113 37 2 tfor:TF3019|3end_tRNA_and_rRNA_cytosine-C5-methylase_3243587..3243737_POSITIVE 283 149 117 125 101 tfor:TF2914|3end_hypothetical_protein_3109643..3109793_POSITIVE 281 146 116 29 4 tfor:TF1357|3end_hypothetical_protein_1437708..1437858_POSITIVE 281 150 119 106 65 tfor:TF0095|3end_methyltransferase_106845..106995_POSITIVE