Origin IGS: tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag .........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 ctgtcttcttaattattaacaggttatttcccgggggtggacgcctttttacgcctcttgttctaccctctgcagattttttagggtgcaaaaatacgcatttttttcgaaccggacaaattatctgctttttcaactgctgtattttccgaatggtaagcgcaactaacggataaaaacaggtaggaacaatgcggatttcgatttcgataattttattcgaatatgcataattgctgattttatgctacctttgcgacttattaaaaatttgtaaacaca Mask Tandem Repeat Region ================================================ tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Find is-nt database================================================ Query_seq: TF2887:TF2888|TF2887:TF2888:phosphomannomutase/phosphoglucomutase:50S ribosomal protein L21:->->:3077853..3078134 282 tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2887:TF2888|TF2887:TF2888:phosphomannomutase/phosphoglucomutase:50S ribosomal protein L21:->->:3077853..3078134 282 tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2887:TF2888|TF2887:TF2888:phosphomannomutase/phosphoglucomutase:50S ribosomal protein L21:->->:3077853..3078134 282 tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 19 End: 114 .................. M S R K G S I K S A I M H I R I K L S K S K S A L F L P V F I R ........................................................................................................................................................................ Protein_Len: 33 Strand: + Start: 101 End: 199 .................................................................................................... M F L S V S C A Y H S E N T A V E K A D N L S G S K K M R I F A P ................................................................................... Protein_Len: 60 Strand: + Start: 42 End: 281 ......................................... M S N Y A Y S N K I I E I E I R I V P T C F Y P L V A L T I R K I Q Q L K K Q I I C P V R K K C V F L H P K K S A E G R . Protein_Len: 47 Strand: - Start: 117 End: 257 .................................................................................................................... N R K G N P F Y L L Q F L L Y N T R N S F F A Y K Q V R F F R C L T S C S A Y F P T W G R S M ......................... Protein_Len: 54 Strand: - Start: 110 End: 271 ............................................................................................................. G N T A S V M R F I C C N F F C I I Q G T R F F H T N K C G L F D A S P L V L P T F L R G G G P F L R N I M ........... Protein_Len: 34 Strand: - Start: 9 End: 110 ........ L N K I L R L P L M F D A I I C I R I F N D F D F D A N N R G T K M ............................................................................................................................................................................ tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag 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================================================ tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2887:TF2888|TF2887:TF2888:phosphomannomutase/phosphoglucomutase:50S ribosomal protein L21:->->:3077853..3078134 282 tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Intra-Species Hit: Count: 1 Min: 1 Max: 282 Len: 282 Subject: tfor_TF2887_TF2888|phosphomannomutase/phosphoglucomutase:50S ribosomal protein L21|POSITIVE:POSITIVE|[3077853,3078134]|282 HSP 1 e-value: 1.0E-146 bit: 517.0 Len: 282 Query Start:1 Query End:282 Subject Strand: POSITIVE Subject Start: 1 Subject End: 282 tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgnnnnnnntgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag tgtgtttacaaatttttaataagtcgcaaaggtagcataaaatcagcaattatgcatattcgaataaaattatcgaaatcgaaatccgcattgttcctacctgtttttatccgttagttgcgcttaccattcggaaaatacagcagttgaaaaagcagataatttgtccggttcgaaaaaaatgcgtatttttgcaccctaaaaaatctgcagagggtagaacaagaggcgtaaaaaggcgtccacccccgggaaataacctgttaataattaagaagacag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUGUUUACAAAUUUUUAAUAAGUCGCAAAGGUAGCAUAAAAUCAGCAAUUAUGCAUAUUCGAAUAAAAUUAUCGAAAUCGAAAUCCGCAUUGUUCCUACCUGUUUUUAUCCGUUAGUUGCGCUUACCAUUCGGAAAAUACAGCAGUUGAAAAAGCAGAUAAUUUGUCCGGUUCGAAAAAAAUGCGUAUUUUUGCACCCUAAAAAAUCUGCAGAGGGUAGAACAAGAGGCGUAAAAAGGCGUCCACCCCCGGGAAAUAACCUGUUAAUAAUUAAGAAGACAG (((.(((...((((.((((((.((.(((((((((((((.......(((....)))...(((((((.((((((((..........................((((.(((.((((...((.......))....))))))).))))..(((.....))).)))))))).....)))))))....)))).))))))))).(((.......(((((.....)))))....(.(((((......))))))......))).....)).)))))).))))..))).))). (-59.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUCUUCUUAAUUAUUAACAGGUUAUUUCCCGGGGGUGGACGCCUUUUUACGCCUCUUGUUCUACCCUCUGCAGAUUUUUUAGGGUGCAAAAAUACGCAUUUUUUUCGAACCGGACAAAUUAUCUGCUUUUUCAACUGCUGUAUUUUCCGAAUGGUAAGCGCAACUAACGGAUAAAAACAGGUAGGAACAAUGCGGAUUUCGAUUUCGAUAAUUUUAUUCGAAUAUGCAUAAUUGCUGAUUUUAUGCUACCUUUGCGACUUAUUAAAAAUUUGUAAACACA ((((..............))))..........(((((((((.((...............))))))))))).((((((((((((((.((((((..((.((((....((((((...........((((((........(((((((.(((((((..((((.......)))).)))).))).))).)))).......)))))).(((....)))........))))))...(((....))).......))))))..)))))).))))..))))))))))....... (-59.26) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 370 250 210 127 89 tfor:TF2079|5end_permease_2245585..2245815_POSITIVE 365 250 203 130 90 tfor:TF2241|5end_ATP-dependent_DNA_helicase_2415401..2415631_POSITIVE 350 253 214 66 22 tfor:TF1064|5end_ampG_permease_1134004..1134234_POSITIVE 343 265 225 218 178 tfor:TF2647|5end_transcriptional_regulator,_possible_arylsulfatase_regulator_2816796..2817026_POSITIVE 338 254 213 173 111 tfor:TF0499|5end_hypothetical_protein_526257..526487_POSITIVE 333 252 211 59 25 tfor:TF1762|5end_hypothetical_protein_1899320..1899550_POSITIVE 333 252 211 44 10 tfor:TF1761|5end_hypothetical_protein_1899305..1899535_POSITIVE 332 244 208 160 120 tfor:TF1656|5end_possible_2-methylthioadenine_synthetase_1771115..1771345_POSITIVE 319 251 215 65 19 tfor:TF0614|5end_UDP-glucose_6-dehydrogenase/UDP-N-acetyl-D-mannosaminuronate_dehydrogenase_647521..647751_POSITIVE 316 251 215 173 128 tfor:TF2245|5end_conserved_hypothetical_protein_2420654..2420884_POSITIVE 316 100 51 229 179 tfor:TF1122|5end_conserved_hypothetical_protein_1196506..1196736_POSITIVE 315 207 164 228 187 tfor:TF0326|5end_hypothetical_protein_353854..354084_POSITIVE 315 207 164 92 51 tfor:TF0327|5end_hypothetical_protein_353718..353948_POSITIVE 314 126 86 205 162 tfor:TF1599|5end_ribonuclease_P_protein_component_1713564..1713794_POSITIVE 313 264 226 61 29 tfor:TF1441|5end_conserved_hypothetical_protein_1525567..1525797_POSITIVE 312 129 82 166 117 tfor:TF1871|5end_hypothetical_protein_2024277..2024507_POSITIVE 309 252 212 141 83 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 308 170 122 119 75 tfor:TF2883|5end_peptidyl-prolyl_cis-trans_isomerase_3074321..3074551_POSITIVE 307 260 215 95 47 tfor:TF1891|5end_hypothetical_protein_2043389..2043619_POSITIVE 306 263 221 146 93 tfor:TF1735|5end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_1860127..1860357_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 250 209 57 16 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 365 250 203 66 26 tfor:TF2240|3end__tetracycline_resistance_element_mobilization_regulatory_protein_2415417..2415567_POSITIVE 355 263 226 52 2 tfor:TF0018|3end_hypothetical_protein_12091..12241_POSITIVE 350 253 214 46 2 tfor:TF1063|3end_possible_amidase_enhancer_precursor;_sporulation-related_protein_1134064..1134214_POSITIVE 348 252 212 52 1 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 333 252 211 72 38 tfor:TF1760|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1899413..1899563_POSITIVE 326 265 236 39 6 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 316 100 51 150 100 tfor:TF1121|3end_ABC_transporter_ATP-binding/permease_component,_bacteriocin/lantibiotic_exporter_1196507..1196657_POSITIVE 315 207 164 78 37 tfor:TF0325|3end_LysM_domain_protein_353784..353934_POSITIVE 313 264 226 73 41 tfor:TF1440|3end_hypothetical_protein_1525659..1525809_POSITIVE 312 129 82 52 3 tfor:TF1870|3end_conserved_hypothetical_protein;_possible_transposase_2024243..2024393_POSITIVE 310 258 211 53 15 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 309 264 225 76 31 tfor:TF1327|3end_L-fucose_permease_1407195..1407345_POSITIVE 308 170 122 119 75 tfor:TF2882|3end_conserved_hypothetical_protein_3074401..3074551_POSITIVE 306 263 221 57 4 tfor:TF1734|3end_conserved_hypothetical_protein_1860118..1860268_POSITIVE 304 265 229 135 97 tfor:TF2660|3end_hypothetical_protein_2833540..2833690_POSITIVE 302 252 213 145 102 tfor:TF0174|3end_hypothetical_protein_185600..185750_POSITIVE 300 259 212 107 50 tfor:TF1311|3end_hypothetical_protein_1388558..1388708_POSITIVE 300 259 212 107 50 tfor:TF1310|3end_hypothetical_protein_1388335..1388485_POSITIVE 294 256 227 53 23 tfor:TF3165|3end_thiol:disulfide_interchange_protein,_thioredoxin_family_protein_3405343..3405493_POSITIVE