Origin IGS: tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctttattcgttgtgtatagaaagatatggaatgtttactattttcgttgtatatttgtaacagaaatcttcaaatacggctgcaaagatagaaaaacaaatgcggcaaacggtatccgccttacatttttcatccgttgcagccagagaaacaaggagggaagtaca Mask Tandem Repeat Region ================================================ tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Find is-nt database================================================ Query_seq: TF2134:TF2133|TF2134:TF2133:conserved hypothetical protein:aspartate-semialdehyde dehydrogenase:->->:2310248..2310414 167 tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2134:TF2133|TF2134:TF2133:conserved hypothetical protein:aspartate-semialdehyde dehydrogenase:->->:2310248..2310414 167 tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2134:TF2133|TF2134:TF2133:conserved hypothetical protein:aspartate-semialdehyde dehydrogenase:->->:2310248..2310414 167 tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 14 End: 127 ............. M F L W L Q R M K N V R R I P F A A F V F L S L Q P Y L K I S V T N I Q R K ........................................ Protein_Len: 48 Strand: + Start: 22 End: 162 ..................... M A A T D E K C K A D T V C R I C F S I F A A V F E D F C Y K Y T T K I V N I P Y L S I H N E * ..... Protein_Len: 52 Strand: - Start: 1 End: 156 T S G E K N R Q S C R I F F T L R I G N A A N T K R D K C G Y K F I E T V F I C R F Y Y V N W I K R Y M ........... tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag 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================================================ tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2134:TF2133|TF2134:TF2133:conserved hypothetical protein:aspartate-semialdehyde dehydrogenase:->->:2310248..2310414 167 tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Intra-Species Hit: Count: 1 Min: 1 Max: 167 Len: 167 Subject: tfor_TF2134_TF2133|conserved hypothetical protein:aspartate-semialdehyde dehydrogenase|POSITIVE:POSITIVE|[2310248,2310414]|167 HSP 1 e-value: 4.0E-90 bit: 331.0 Len: 167 Query Start:1 Query End:167 Subject Strand: POSITIVE Subject Start: 1 Subject End: 167 tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag tgtacttccctccttgtttctctggctgcaacggatgaaaaatgtaaggcggataccgtttgccgcatttgtttttctatctttgcagccgtatttgaagatttctgttacaaatatacaacgaaaatagtaaacattccatatctttctatacacaacgaataaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUACUUCCCUCCUUGUUUCUCUGGCUGCAACGGAUGAAAAAUGUAAGGCGGAUACCGUUUGCCGCAUUUGUUUUUCUAUCUUUGCAGCCGUAUUUGAAGAUUUCUGUUACAAAUAUACAACGAAAAUAGUAAACAUUCCAUAUCUUUCUAUACACAACGAAUAAAG .............(((((.....((((((((.((((((((((((...(((((((...))))))).....)))))))).))))))))))))((((..((((((...((((((..................)).))))......))))))..))))..)))))...... (-36.67) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUAUUCGUUGUGUAUAGAAAGAUAUGGAAUGUUUACUAUUUUCGUUGUAUAUUUGUAACAGAAAUCUUCAAAUACGGCUGCAAAGAUAGAAAAACAAAUGCGGCAAACGGUAUCCGCCUUACAUUUUUCAUCCGUUGCAGCCAGAGAAACAAGGAGGGAAGUACA .......((((.(((((......))))).))))..((((.(((((.((((.((((((.((.(....).)))))))).((((((((.(((.((((((.....((((..........))))......)))))))))..))))))))......)))).))))).)))).. (-39.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 390 66 23 231 189 tfor:TF2830|5end_ABC_transporter,_ATP-binding_protein_3020581..3020811_POSITIVE 387 65 24 86 46 tfor:TF0080|5end_phosphate_ABC_transporter,_periplasmic_phosphate-binding_protein_86325..86555_POSITIVE 381 97 51 216 165 tfor:TF1628|5end_conserved_hypothetical_protein_1740627..1740857_POSITIVE 364 66 22 66 26 tfor:TF3134|5end_HD_superfamily_hydrolase_3367990..3368220_POSITIVE 345 66 23 164 117 tfor:TF2245|5end_conserved_hypothetical_protein_2420654..2420884_POSITIVE 343 67 22 155 107 tfor:TF2849|5end_histidinol-phosphate_transaminase_3037288..3037518_POSITIVE 342 66 21 192 149 tfor:TF1430|5end_hypothetical_protein_1514867..1515097_POSITIVE 337 90 47 187 141 tfor:TF0339|5end_hypothetical_protein_363470..363700_POSITIVE 328 65 25 46 1 tfor:TF0457|5end_beta-glucanase_precursor_474099..474329_POSITIVE 323 90 41 215 167 tfor:TF1768|5end_conserved_hypothetical_protein;_possible_transposase_1906526..1906756_POSITIVE 321 90 43 100 48 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 320 70 24 187 136 tfor:TF1329|5end_glucose-1-phosphate_thymidyltransferase_1408578..1408808_POSITIVE 318 91 52 120 71 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 317 89 47 184 144 tfor:TF1350|5end_possible_transcriptional_regulator_1429639..1429869_POSITIVE 316 60 12 62 13 tfor:TF2747|5end_heat_shock_protein,_HSP90_family_2928279..2928509_POSITIVE 316 59 15 217 176 tfor:TF0617|5end_alpha-1,2-mannosidase_650862..651092_POSITIVE 315 107 61 77 38 tfor:TF2020|5end_muconate_cycloisomerase_2176321..2176551_POSITIVE 314 89 49 199 165 tfor:TF2430|5end_hypothetical_protein_2612660..2612890_POSITIVE 314 89 47 216 171 tfor:TF1833|5end_2-isopropylmalate_synthase_1981511..1981741_POSITIVE 312 89 48 221 188 tfor:TF0542|5end_hypothetical_protein_571918..572148_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 364 66 22 43 3 tfor:TF3132|3end_conserved_hypothetical_protein_3368047..3368197_POSITIVE 335 90 44 82 40 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 324 70 24 70 28 tfor:TF2179|3end_integral_membrane_protein,_MarC_family_2352369..2352519_POSITIVE 323 74 46 142 115 tfor:TF2162|3end_thermolysin_precursor_2340713..2340863_POSITIVE 320 66 24 134 91 tfor:TF2746|3end_hypothetical_protein_2928246..2928396_POSITIVE 318 91 52 129 80 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 317 89 47 150 110 tfor:TF1349|3end_conserved_hypothetical_protein;_possible_prophage_maintanence_or_virulance_related_1429685..1429835_POSITIVE 316 65 24 41 1 tfor:TF1422|3end_GLCNAC_transferase_(UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)-pyr_ophosphoryl-undecaprenol_N-acetylglucosamine_transferase)_1505823..1505973_POSITIVE 315 107 61 77 38 tfor:TF2019|3end_dipeptidyl_peptidase_VI_2176401..2176551_POSITIVE 314 89 47 127 82 tfor:TF1832|3end_3-isopropylmalate_dehydratase,_small_subunit_1981502..1981652_POSITIVE 312 89 48 81 48 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 306 65 21 132 73 tfor:TF2503|3end_conserved_hypothetical_protein_2680111..2680261_POSITIVE 306 93 54 56 20 tfor:TF2335|3end_conserved_hypothetical_protein_2496177..2496327_POSITIVE 302 98 57 61 6 tfor:TF1431|3end_conserved_hypothetical_protein;_possible_acyltransferase_1516008..1516158_POSITIVE 302 65 23 149 91 tfor:TF0967|3end_alpha_glycan_phosphorylase_1018872..1019022_POSITIVE 301 71 31 150 95 tfor:TF1434|3end_transketolase_1519595..1519745_POSITIVE 301 92 56 126 89 tfor:TF0844|3end_transposase,_IS3_family_896099..896249_POSITIVE 298 90 48 141 107 tfor:TF0616|3end_conserved_hypothetical_protein_650658..650808_POSITIVE 297 66 24 43 4 tfor:TF3095|3end_ABC_transporter,_ATP-binding_protein_3328033..3328183_POSITIVE 296 80 32 111 61 tfor:TF1326|3end_hypothetical_protein_1404100..1404250_POSITIVE