Origin IGS: ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaatgttctttcctgcgttatcccctgattctgtggataaccgtattaccgcctttgagtgagctgataccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagagcttgcatgcctgcaggtcgactctagaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagtatttttgggcaacatggcttaggagatt .........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 aatctcctaagccatgttgcccaaaaatactttccagcacactggggtcatagctgtttcctgatctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctctgcattaatgaatcggccaacgcgcggggagaggcggtttgcgtattgggcgctcttccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacattcgggcagcgttgggtcctggccacgggtgcgcatgatcgtgctcctgtcgttgaggacccggcnnnnnttaa Mask Tandem Repeat Region ================================================ ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaatgttctttcctgcgttatcccctgattctgtggataaccgtattaccgcctttgagtgagctgataccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagagcttgcatgcctgcaggtcgactctagaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagtatttttgggcaacatggcttaggagatt Find is-nt database================================================ Query_seq: SMT_478:SMT_479|SMT_478:SMT_479:hypothetical protein predicted by Glimmer/Critica:K03308 neurotransmitter:Na+ symporter, NSS family:-><-:415318..415693 376 ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaatgttctttcctgcgttatcccctgattctgtggataaccgtattaccgcctttgagtgagctgataccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagagcttgcatgcctgcaggtcgactctagaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagtatttttgggcaacatggcttaggagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_478:SMT_479|SMT_478:SMT_479:hypothetical protein predicted by Glimmer/Critica:K03308 neurotransmitter:Na+ symporter, NSS family:-><-:415318..415693 376 ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaatgttctttcctgcgttatcccctgattctgtggataaccgtattaccgcctttgagtgagctgataccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagagcttgcatgcctgcaggtcgactctagaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagtatttttgggcaacatggcttaggagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_478:SMT_479|SMT_478:SMT_479:hypothetical protein predicted by Glimmer/Critica:K03308 neurotransmitter:Na+ symporter, NSS family:-><-:415318..415693 376 ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaatgttctttcctgcgttatcccctgattctgtggataaccgtattaccgcctttgagtgagctgataccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagagcttgcatgcctgcaggtcgactctagaggatccccctgtgctaggatggtcacctagatcaggaaacagctatgaccccagtgtgctggaaagtatttttgggcaacatggcttaggagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 84 Max: 251 Len: 168 Subject: UniRef90_Q9KHC4 Cluster: SocE; n=1; Myxococcus xanthus|Rep: SocE - Myxococcus xanthus HSP 1 e-value: 4.0E-7 bit: 55.8 Len: 168 Query Start:84 Query End:251 Subject Strand: null Subject Start: 266 Subject End: 322 ................................................................................... C I N E S A N A R G E A V C V L G A L P L P R S L T R C A R S F G C G E R Y Q L - T Q R R * Y G Y P Q N Q G I T Q ............................................................................................................................. ................................................................................... C I R D P A T A R S E A V W V L V A L P L L R S R T R C V R S V G C G G A V S A H S P G R P Y G D P Q P Q G M A Q ............................................................................................................................. ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngagcttgcatgcctgcaggnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagtatttttgggcaacatggcttaggagatt Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 36 End: 179 ................................... M M R T R G Q D P T L P E C S F L R Y P L I L W I T V L P P L S E L I P L A A A E R P S A A S Q ..................................................................................................................................................................................................... Protein_Len: 48 Strand: + Start: 232 End: 375 ....................................................................................................................................................................................................................................... M A D S L M Q S L H A C R S T L E D P P V L G W S P R S G N S Y D P S V L E S I F G Q H G L G D . Protein_Len: 43 Strand: - Start: 179 End: 307 .................................................................................................................................................................................. H A L F R F L A W Y A F R R E G R T P R N M L A S S A H R C T S E L P D G Q A L I T M ..................................................................... Protein_Len: 60 Strand: - Start: 120 End: 323 ....................................................................................................................... E G C G F S R A C R T L S R P L P L A G L V C V A E G R A N A S E N I C L K C A Q L D V R S S G G T S P H D G L D P F M ..................................................... Protein_Len: 60 Strand: - Start: 40 End: 240 ....................................... L A A R I N K G A N D G S E T S L R I V A K S H A S V A R R L R V V S R L S D T L S S A S S R G I R L G G R G A R Q G M ........................................................................................................................................ Protein_Len: 30 Strand: - Start: 3 End: 92 .. X X A P D E V V P A R D H A G T A L V W R Q G F T R E Q T M ............................................................................................................................................................................................................................................................................................ ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngagcttgcatgcctgcaggnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagtatttttgggcaacatggcttaggagatt 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================================================ ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngagcttgcatgcctgcaggnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagtatttttgggcaacatggcttaggagatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_478:SMT_479|SMT_478:SMT_479:hypothetical protein predicted by Glimmer/Critica:K03308 neurotransmitter:Na+ symporter, NSS family:-><-:415318..415693 376 ttaannnnngccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngagcttgcatgcctgcaggnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagtatttttgggcaacatggcttaggagatt Intra-Species Hit: Count: 1 Min: 10 Max: 376 Len: 367 Subject: smit_SMT_478_SMT_479|hypothetical protein predicted by Glimmer/Critica:K03308 neurotransmitter:Na+ symporter, NSS family|POSITIVE:NEGATIVE|[415318,415693]|376 HSP 1 e-value: 8.0E-29 bit: 129.0 Len: 65 Query Start:10 Query End:74 Subject Strand: POSITIVE Subject Start: 10 Subject End: 74 .........gccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaa.............................................................................................................................................................................................................................................................................................................. .........gccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaa.............................................................................................................................................................................................................................................................................................................. HSP 2 e-value: 1.0E-8 bit: 61.9 Len: 31 Query Start:346 Query End:376 Subject Strand: POSITIVE Subject Start: 346 Subject End: 376 .........................................................................................................................................................................................................................................................................................................................................................agtatttttgggcaacatggcttaggagatt .........................................................................................................................................................................................................................................................................................................................................................agtatttttgggcaacatggcttaggagatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCGGGUCCUCAACGACAGGAGCACGAUCAUGCGCACCCGUGGCCAGGACCCAACGCUGCCCGAAUGUUCUUUCCUGCGUUAUCCCCUGAUUCUGUGGAUAACCGUAUUACCGCCUUUGAGUGAGCUGAUACCGCUCGCCGCAGCCGAACGACCGAGCGCAGCGAGUCAGUGAGCGAGGAAGCGGAAGAGCGCCCAAUACGCAAACCGCCUCUCCCCGCGCGUUGGCCGAUUCAUUAAUGCAGAGCUUGCAUGCCUGCAGGUCGACUCUAGAGGAUCCCCCUGUGCUAGGAUGGUCACCUAGAUCAGGAAACAGCUAUGACCCCAGUGUGCUGGAAAGUAUUUUUGGGCAACAUGGCUUAGGAGAUU ((((((((((...(.((.((.((.(......).)).)).)).)..)))))))...(.((((((((.((.((((((.(((((((((.(.......).))))))).((((((((((.(((..((..((((.....((((((.((.((((......)).)))).))))))))))..))..))).))))..(((((.((((..(((...............)))..)))).)).)))..))))))...))..((((((.((..(((((..(((((..((((..((((...))))..))))..)))))...(....).....))))).)))))))).)))))).)).)))))))).)..))).......... (-129.06) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCUCCUAAGCCAUGUUGCCCAAAAAUACUUUCCAGCACACUGGGGUCAUAGCUGUUUCCUGAUCUAGGUGACCAUCCUAGCACAGGGGGAUCCUCUAGAGUCGACCUGCAGGCAUGCAAGCUCUGCAUUAAUGAAUCGGCCAACGCGCGGGGAGAGGCGGUUUGCGUAUUGGGCGCUCUUCCGCUUCCUCGCUCACUGACUCGCUGCGCUCGGUCGUUCGGCUGCGGCGAGCGGUAUCAGCUCACUCAAAGGCGGUAAUACGGUUAUCCACAGAAUCAGGGGAUAACGCAGGAAAGAACAUUCGGGCAGCGUUGGGUCCUGGCCACGGGUGCGCAUGAUCGUGCUCCUGUCGUUGAGGACCCGGC ..........(((..(((((((.......((((((.((...(((......))).(((..((((((((.(((((((...((((...(((.....)))))))..(((.(((((((((......)).)))).....(((.(.(((......(((((((..(((((...((((.....))))....))))))))))))..((((.((((((((((.(((....))))).))))))))))))....))).).))).))))))......)))))))...)).))))))..)))..)).)))))).......)))))))...((((((((((.(((((.((((......)))).))))).))).)))))))))) (-147.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1234 180 131 215 166 smit:SMT_1982|5end_conserved_hypothetical_protein_1913036..1913266_POSITIVE 1234 180 131 203 154 smit:SMT_1691|5end_putative_deoxyribonuclease_1674978..1675208_POSITIVE 1234 180 131 228 179 smit:SMT_1156|5end_K07485_transposase_1099938..1100168_POSITIVE 1205 230 181 183 134 smit:SMT_1986|5end_mercuric_reductase_1914843..1915073_POSITIVE 1205 230 181 216 167 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 1175 190 141 198 149 smit:SMT_1972|5end_uncharacterized_conserved_phage_related_protein_1903662..1903892_POSITIVE 1039 290 241 190 141 smit:SMT_959|5end_1-acyl-sn-glycerol-3-phosphate_acyltransferase_905283..905513_POSITIVE 873 274 231 231 188 smit:SMT_1914|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1859486..1859716_POSITIVE 775 232 193 230 192 smit:SMT_2045|5end_K+_transport_system,_NAD-binding_component_1956139..1956369_POSITIVE 654 303 272 231 200 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 432 315 288 231 204 smit:SMT_712|5end_alcohol_dehydrogenase,_zinc-containing_620381..620611_NEGATIVE 421 339 293 215 166 smit:SMT_389|5end_PTS_system,_galactitol-specific_IIA_component,_putative_321779..322009_POSITIVE 416 194 152 136 101 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 405 338 293 194 146 smit:SMT_543|5end_topoisomerase_IV_subunit_B_458372..458602_POSITIVE 397 338 317 178 157 smit:SMT_1671|5end_hypothetical_protein_1659757..1659987_NEGATIVE 396 260 213 137 76 smit:SMT_941|5end_hypothetical_protein_893558..893788_NEGATIVE 395 133 112 231 210 smit:SMT_2009|5end_GtrA_family_protein_1928973..1929203_POSITIVE 382 160 111 160 120 smit:SMT_174|5end_30S_ribosomal_protein_S19_117431..117661_POSITIVE 380 230 181 222 167 smit:SMT_2002|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1924405..1924635_NEGATIVE 380 230 181 222 167 smit:SMT_1942|5end_zinc_metalloprotease_ZmpB,_truncated_1877882..1878112_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1117 290 241 77 28 smit:SMT_2024|3end_hypothetical_protein_1940690..1940840_POSITIVE 1117 290 241 66 17 smit:SMT_2002|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1924145..1924295_NEGATIVE 1117 290 241 77 28 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 1117 290 241 82 33 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 1117 290 241 66 17 smit:SMT_1966|3end_DNA_polymerase_III_alpha_subunit_1898328..1898478_POSITIVE 1117 290 241 77 28 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE 1117 290 241 66 17 smit:SMT_1927|3end_cell_division_protein_FtsH_1868408..1868558_NEGATIVE 1117 290 241 77 28 smit:SMT_1926|3end_mevalonate_kinase_1868062..1868212_POSITIVE 1117 290 241 77 28 smit:SMT_1887|3end_LicC_protein_1841740..1841890_POSITIVE 1117 290 241 66 17 smit:SMT_1885|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1839830..1839980_NEGATIVE 1117 290 241 66 17 smit:SMT_1873|3end_K02006_cobalt_transport_system_ATP-binding_protein_1832351..1832501_POSITIVE 1117 290 241 82 33 smit:SMT_1852|3end_1,4-alpha-glucan_branching_enzyme_1816467..1816617_NEGATIVE 1117 290 241 82 33 smit:SMT_326|3end_K02029_polar_amino_acid_transport_system_permease_protein_263217..263367_NEGATIVE 1039 290 241 66 17 smit:SMT_958|3end_hypothetical_protein_predicted_by_Glimmer/Critica_905239..905389_POSITIVE 987 330 282 49 1 smit:SMT_2030|3end_chromosomal_replication_initiator_protein_DnaA_1944790..1944940_NEGATIVE 951 338 291 53 6 smit:SMT_1895|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1847402..1847552_POSITIVE 873 338 291 130 83 smit:SMT_713|3end_heat_shock_protein_HtpX_620505..620655_NEGATIVE 732 343 301 47 1 smit:SMT_1857|3end_hypothetical_protein_1821145..1821295_POSITIVE 517 338 312 27 1 smit:SMT_1928|3end_O-methyltransferase_family_protein_1869158..1869308_NEGATIVE 471 338 314 114 90 smit:SMT_1874|3end_hypothetical_protein_1832623..1832773_NEGATIVE