Origin IGS: aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt .........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.........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 aaagagaggatgtacaatgaatagttcaatgagtcagttttcaattctaaaaaacagtgatttacaagagtactctggtggattaaatcccacttgtggagtatgagttggtatgtcaatttatataggtctaactgcatttactggtcttgttggtgttgcatttgcgatttcaacaggcgggctagcggcaggtagtttttgtttataacgagaaaagtaattagtatattttacattatttctctaggagtcttgtctttactaaagtcacaagatattgttgatatcatagccactctactattaatttgtataggtttaaaaggaataaaccaaaagggaattttataaggttgtgatgacgatactttttcgcctcattacatgtttggacaatgtttcatctgttaatttccaaattgagaatggggatattgtaactaagtgtgattttgagttaactaaagatgtcatggctaatggttggatatcatcattgggtaggagctattgtctttcaggttatagaggataattt Mask Tandem Repeat Region ================================================ aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Find is-nt database================================================ Query_seq: SMT_806:SMT_807|SMT_806:SMT_807:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:716257..716797 541 aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_806:SMT_807|SMT_806:SMT_807:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:716257..716797 541 aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_806:SMT_807|SMT_806:SMT_807:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:716257..716797 541 aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 50 End: 190 ................................................. M Q P L A M T S L V N S K S H L V T I S P F S I W K L T D E T L S K H V M R R K S I V I T T L ............................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 36 Strand: + Start: 142 End: 249 ............................................................................................................................................. M V Q T C N E A K K Y R H H N L I K F P F G L F L L N L Y K L I V E W L .................................................................................................................................................................................................................................................................................................... Protein_Len: 37 Strand: + Start: 195 End: 305 .................................................................................................................................................................................................. M P F W F I P F K P I Q I N S R V A M I S T I S C D F S K D K T P R E I M ............................................................................................................................................................................................................................................ Protein_Len: 46 Strand: + Start: 402 End: 539 ................................................................................................................................................................................................................................................................................................................................................................................................................. M Q L D L Y K L T Y Q L I L H K W D L I H Q S T L V N H C F L E L K T D S L N Y S L Y I L S .. Protein_Len: 38 Strand: - Start: 347 End: 460 .......................................................................................................................................................................................................................................................................................................................................................... R G S A R R N F D C I C C W C S W Y I C N S R Y L N V Y W S M S W L H S K M ................................................................................. Protein_Len: 32 Strand: - Start: 334 End: 429 ............................................................................................................................................................................................................................................................................................................................................. L C F S G A A L G G T S I A F A V G V L G T F A T L G I Y I S M ................................................................................................................ Protein_Len: 50 Strand: - Start: 191 End: 340 .............................................................................................................................................................................................. L I G K Q N I G K L G I C I L L L T A I I D V I D Q S K L L S L V G L S I I Y F I S I V K R T I F M ......................................................................................................................................................................................................... Protein_Len: 59 Strand: - Start: 7 End: 183 ...... G R Y G S L C Y S R G L S S I W G N A M V D K T L E F D C K T V I D G N E I Q F N V S S V N D L C T I L R F L I T M M ...................................................................................................................................................................................................................................................................................................................................................................... aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt 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================================================ aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 47 HP_score: -2.9 Tail_Score: -3.48807 Start: 251 End: 265 Full_Region: TAGTAGAGTGGCTAT GATAT CAACA ATATC TTGTGACTTTAGTAA ..........................................................................................................................................................................................................................................................GATATCAACAATATC.................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: SMT_806:SMT_807|SMT_806:SMT_807:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:716257..716797 541 aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Intra-Species Hit: Count: 1 Min: 1 Max: 541 Len: 541 Subject: smit_SMT_806_SMT_807|hypothetical protein:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[716257,716797]|541 HSP 1 e-value: 0.0 bit: 1072.0 Len: 541 Query Start:1 Query End:541 Subject Strand: POSITIVE Subject Start: 1 Subject End: 541 aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt aaattatcctctataacctgaaagacaatagctcctacccaatgatgatatccaaccattagccatgacatctttagttaactcaaaatcacacttagttacaatatccccattctcaatttggaaattaacagatgaaacattgtccaaacatgtaatgaggcgaaaaagtatcgtcatcacaaccttataaaattcccttttggtttattccttttaaacctatacaaattaatagtagagtggctatgatatcaacaatatcttgtgactttagtaaagacaagactcctagagaaataatgtaaaatatactaattacttttctcgttataaacaaaaactacctgccgctagcccgcctgttgaaatcgcaaatgcaacaccaacaagaccagtaaatgcagttagacctatataaattgacataccaactcatactccacaagtgggatttaatccaccagagtactcttgtaaatcactgttttttagaattgaaaactgactcattgaactattcattgtacatcctctcttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUAUCCUCUAUAACCUGAAAGACAAUAGCUCCUACCCAAUGAUGAUAUCCAACCAUUAGCCAUGACAUCUUUAGUUAACUCAAAAUCACACUUAGUUACAAUAUCCCCAUUCUCAAUUUGGAAAUUAACAGAUGAAACAUUGUCCAAACAUGUAAUGAGGCGAAAAAGUAUCGUCAUCACAACCUUAUAAAAUUCCCUUUUGGUUUAUUCCUUUUAAACCUAUACAAAUUAAUAGUAGAGUGGCUAUGAUAUCAACAAUAUCUUGUGACUUUAGUAAAGACAAGACUCCUAGAGAAAUAAUGUAAAAUAUACUAAUUACUUUUCUCGUUAUAAACAAAAACUACCUGCCGCUAGCCCGCCUGUUGAAAUCGCAAAUGCAACACCAACAAGACCAGUAAAUGCAGUUAGACCUAUAUAAAUUGACAUACCAACUCAUACUCCACAAGUGGGAUUUAAUCCACCAGAGUACUCUUGUAAAUCACUGUUUUUUAGAAUUGAAAACUGACUCAUUGAACUAUUCAUUGUACAUCCUCUCUUU .................((((((((((...((((.......((((((((((..........(((....(((((((((((((((.((........)))))))........(((.........)))..))))).)))))..((((.((....)))))).....)))......))))))))))............((((((((((..((((((.......)))))).............((((((((((.((((...((((.....((((((.((....))....))))))......((((((....((((..........)))).))))))..............(((.((((..........(.(((((.....((....)).....))))).)..........)))).)))...........)))))))))).)))).))))....))).))))))).........))))((....)).......))))))))))...............((.(((.....))).)).............. (-82.14) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGAGAGGAUGUACAAUGAAUAGUUCAAUGAGUCAGUUUUCAAUUCUAAAAAACAGUGAUUUACAAGAGUACUCUGGUGGAUUAAAUCCCACUUGUGGAGUAUGAGUUGGUAUGUCAAUUUAUAUAGGUCUAACUGCAUUUACUGGUCUUGUUGGUGUUGCAUUUGCGAUUUCAACAGGCGGGCUAGCGGCAGGUAGUUUUUGUUUAUAACGAGAAAAGUAAUUAGUAUAUUUUACAUUAUUUCUCUAGGAGUCUUGUCUUUACUAAAGUCACAAGAUAUUGUUGAUAUCAUAGCCACUCUACUAUUAAUUUGUAUAGGUUUAAAAGGAAUAAACCAAAAGGGAAUUUUAUAAGGUUGUGAUGACGAUACUUUUUCGCCUCAUUACAUGUUUGGACAAUGUUUCAUCUGUUAAUUUCCAAAUUGAGAAUGGGGAUAUUGUAACUAAGUGUGAUUUUGAGUUAACUAAAGAUGUCAUGGCUAAUGGUUGGAUAUCAUCAUUGGGUAGGAGCUAUUGUCUUUCAGGUUAUAGAGGAUAAUUU ..(((((.((((((.((((..((((((..((((......)))).((((.........((((.(((....((((((((((((........)))))...)))))))......))).)))).....((((..(..((((((..(..(((((((((((((.(((((....))))).))))))...)))))))..)...))))))...)..))))...))))..).)))))...)))).))))))...))))).......((((((((..((((((((((......(((((.((((((((((....(((.........)))..((((((.......)))))).................)))))))))).)))))........(((((((....(((((((.(((.............))))))))))....)))))))..............))))))))))...((((((((((((..((((((..((.(..(.........)..).))..)))))))))))))..)))))..))))))))... (-128.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 891 70 21 161 112 smit:SMT_806|5end_hypothetical_protein_716166..716396_NEGATIVE 348 400 352 121 64 smit:SMT_2045|5end_K+_transport_system,_NAD-binding_component_1956139..1956369_POSITIVE 310 50 7 214 164 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 303 389 344 206 159 smit:SMT_1158|5end_DNA_gyrase_subunit_B_1103957..1104187_NEGATIVE 300 400 351 183 136 smit:SMT_1359|5end_dihydroorotate_dehydrogenase_electron_transfer_subunit_1338003..1338233_NEGATIVE 297 400 356 68 20 smit:SMT_1796|5end_dihydroorotate_dehydrogenase_A_1770816..1771046_NEGATIVE 293 76 31 106 60 smit:SMT_749|5end_shikimate_kinase_653971..654201_NEGATIVE 291 488 443 193 138 smit:SMT_1921|5end_D-alanine-activating_enzyme_1863185..1863415_POSITIVE 291 399 351 63 24 smit:SMT_1696|5end_hypothetical_protein_1678182..1678412_POSITIVE 290 389 343 81 32 smit:SMT_1162|5end_ATP-dependent_DNA_helicase_1108895..1109125_NEGATIVE 287 400 352 90 31 smit:SMT_1634|5end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1621074..1621304_POSITIVE 285 388 344 59 5 smit:SMT_940|5end_tRNA_pseudouridine_synthase_A_892764..892994_NEGATIVE 275 475 431 227 179 smit:SMT_623|5end_50S_ribosomal_protein_L21_529412..529642_POSITIVE 273 410 362 96 45 smit:SMT_1872|5end_K03217_preprotein_translocase_YidC_subunit_1831764..1831994_NEGATIVE 271 417 374 226 183 smit:SMT_324|5end_K02029_polar_amino_acid_transport_system_permease_protein_262070..262300_NEGATIVE 270 298 265 43 9 smit:SMT_1292|5end_K02050_sulfonate/nitrate/taurine_transport_system_permease_protein_1254179..1254409_POSITIVE 270 388 347 68 26 smit:SMT_1266|5end_predicted_transcriptional_regulator_1231362..1231592_POSITIVE 269 79 32 139 99 smit:SMT_1451|5end_K02057_simple_sugar_transport_system_permease_protein_1434683..1434913_NEGATIVE 268 200 162 49 16 smit:SMT_1508|5end_hypothetical_protein_1491568..1491798_NEGATIVE 266 387 348 216 155 smit:SMT_242|5end_PTS_system,_mannose-specific_IID_component_180074..180304_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 387 349 49 11 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 293 76 31 113 67 smit:SMT_750|3end_3-phosphoshikimate_1-carboxyvinyltransferase_653964..654114_NEGATIVE 291 399 351 100 61 smit:SMT_1695|3end_ribulose-phosphate_3-epimerase_1678299..1678449_POSITIVE 271 417 374 49 6 smit:SMT_325|3end_K02029_polar_amino_acid_transport_system_permease_protein_262247..262397_NEGATIVE 270 298 265 80 46 smit:SMT_1291|3end_hypothetical_protein_1254296..1254446_POSITIVE 269 79 32 146 106 smit:SMT_1452|3end_ABC-type_uncharacterized_transport_system,_ATPase_component_1434676..1434826_NEGATIVE 268 200 162 47 14 smit:SMT_1509|3end_phosphopentomutase_1491570..1491720_NEGATIVE 256 396 359 41 10 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 255 382 342 53 1 smit:SMT_1789|3end_hypothetical_protein_1765511..1765661_POSITIVE 253 402 361 42 6 smit:SMT_568|3end_hypothetical_protein_486389..486539_POSITIVE 251 189 146 144 98 smit:SMT_1474|3end_K02003_1455951..1456101_POSITIVE 250 387 349 82 44 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 248 376 337 106 73 smit:SMT_1262|3end_ribosomal_protein_L11_methyltransferase_1228182..1228332_POSITIVE 247 388 347 80 40 smit:SMT_2125|3end_3-phosphoshikimate_1-carboxyvinyltransferase_2009098..2009248_POSITIVE 247 375 353 77 50 smit:SMT_1925|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_1867458..1867608_POSITIVE 247 42 11 75 46 smit:SMT_1469|3end_GTP_pyrophosphokinase_1452632..1452782_POSITIVE 247 386 348 39 7 smit:SMT_904|3end_hypothetical_protein_852294..852444_NEGATIVE 246 376 350 53 21 smit:SMT_2110|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1999344..1999494_POSITIVE 245 395 357 38 2 smit:SMT_1427|3end_S1_RNA_binding_domain_protein_1411300..1411450_NEGATIVE 242 387 343 96 37 smit:SMT_1751|3end_indole-3-glycerol_phosphate_synthase_1729865..1730015_POSITIVE