Origin IGS: gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 accgagttattctttaaggaatataaaaaccgagtctaagagtttaatacttaggctcggtttttatatatttttcaagtaacaaagcaaccactcccccagcaatgcaagtgcaaaatcctccagaatatgatagaataagagaaaggactctatcaaggaggaaaac Mask Tandem Repeat Region ================================================ gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Find is-nt database================================================ Query_seq: SMT_1639:SMT_1640|SMT_1639:SMT_1640:glycerol-3-phosphate dehydrogenase (NAD(P)+):hypothetical protein predicted by Glimmer/Critica:<-<-:1625910..1626078 169 gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1639:SMT_1640|SMT_1639:SMT_1640:glycerol-3-phosphate dehydrogenase (NAD(P)+):hypothetical protein predicted by Glimmer/Critica:<-<-:1625910..1626078 169 gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1639:SMT_1640|SMT_1639:SMT_1640:glycerol-3-phosphate dehydrogenase (NAD(P)+):hypothetical protein predicted by Glimmer/Critica:<-<-:1625910..1626078 169 gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 11 End: 103 .......... M I E S F L L F Y H I L E D F A L A L L G E W L L C Y L K N I .................................................................. Protein_Len: 31 Strand: + Start: 31 End: 123 .............................. M L S Y S G G F C T C I A G G V V A L L L E K Y I K T E P K Y .............................................. Protein_Len: 34 Strand: - Start: 3 End: 104 .. K R R S L T R E R I R D Y E P P N Q V Q M A P P T T A K N S S F Y M ................................................................. gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 31 End: 60 ..............................AGTGCAAAATCCTCCAGAATATGATAGAAT............................................................................................................. PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 98 End: 127 .................................................................................................TTTAATACTTAGGCTCGGTTTTTATATATT.......................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -11.2 Tail_Score: -5.20633 Start: 110 End: 140 Full_Region: taaggaatataaaaa ccgagtctaagagt tta atacttaggctcgg tttttatatattttt .............................................................................................................ccgagtctaagagtttaatacttaggctcgg............................. Find igs database================================================ Query_seq: SMT_1639:SMT_1640|SMT_1639:SMT_1640:glycerol-3-phosphate dehydrogenase (NAD(P)+):hypothetical protein predicted by Glimmer/Critica:<-<-:1625910..1626078 169 gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Intra-Species Hit: Count: 1 Min: 1 Max: 169 Len: 169 Subject: smit_SMT_1639_SMT_1640|glycerol-3-phosphate dehydrogenase (NAD(P)+):hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[1625910,1626078]|169 HSP 1 e-value: 3.0E-91 bit: 335.0 Len: 169 Query Start:1 Query End:169 Subject Strand: POSITIVE Subject Start: 1 Subject End: 169 gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt gttttcctccttgatagagtcctttctcttattctatcatattctggaggattttgcacttgcattgctgggggagtggttgctttgttacttgaaaaatatataaaaaccgagcctaagtattaaactcttagactcggtttttatattccttaaagaataactcggt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUCCUCCUUGAUAGAGUCCUUUCUCUUAUUCUAUCAUAUUCUGGAGGAUUUUGCACUUGCAUUGCUGGGGGAGUGGUUGCUUUGUUACUUGAAAAAUAUAUAAAAACCGAGCCUAAGUAUUAAACUCUUAGACUCGGUUUUUAUAUUCCUUAAAGAAUAACUCGGU ....((((((.(((((((((..........)))))))))......))))))...(((....)))..((((((.((((....))))((((.(((.......((((((((((((((.(((((.........))))).))))))))))))))......))))))).)))))) (-49.42) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCGAGUUAUUCUUUAAGGAAUAUAAAAACCGAGUCUAAGAGUUUAAUACUUAGGCUCGGUUUUUAUAUAUUUUUCAAGUAACAAAGCAACCACUCCCCCAGCAAUGCAAGUGCAAAAUCCUCCAGAAUAUGAUAGAAUAAGAGAAAGGACUCUAUCAAGGAGGAAAAC .....((((((....((((.((((((((((((((((((((.........)))))))))))))))))))).))))...))))))........((((....((....))..)))).....((((((......(((((((..............))))))).)))))).... (-47.34) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 947 90 41 181 132 smit:SMT_1639|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_1625819..1626049_NEGATIVE 319 92 54 197 148 smit:SMT_331|5end_endo-beta-N-acetylglucosaminidase_266416..266646_POSITIVE 310 87 44 188 128 smit:SMT_1974|5end_high-affinity_zinc_uptake_system_protein_ZnuA_precursor_/_hypothetical_exported_protein_1905506..1905736_POSITIVE 308 82 49 221 188 smit:SMT_391|5end_PTS_system,_galactose-specific_IIC_component_322647..322877_POSITIVE 307 49 4 138 95 smit:SMT_919|5end_hypothetical_protein_872499..872729_NEGATIVE 301 89 47 54 1 smit:SMT_2072|5end_exonuclease_RexA_1976789..1977019_NEGATIVE 301 100 54 141 91 smit:SMT_2064|5end_amino_acid_ABC_transporter,_ATP-binding_protein_1972182..1972412_POSITIVE 299 47 1 142 94 smit:SMT_1857|5end_hypothetical_protein_1820931..1821161_POSITIVE 299 47 1 142 94 smit:SMT_834|5end_hypothetical_protein_777112..777342_NEGATIVE 298 90 44 59 9 smit:SMT_118|5end_K02026_multiple_sugar_transport_system_permease_protein_69430..69660_POSITIVE 293 94 52 99 57 smit:SMT_1664|5end_hypothetical_protein_1655890..1656120_NEGATIVE 285 89 49 172 128 smit:SMT_2043|5end_putative_mucus_binding_protein_1954768..1954998_NEGATIVE 284 85 41 200 165 smit:SMT_959|5end_1-acyl-sn-glycerol-3-phosphate_acyltransferase_905283..905513_POSITIVE 283 69 22 99 39 smit:SMT_1667|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1657567..1657797_NEGATIVE 283 69 22 199 139 smit:SMT_1666|5end_hypothetical_protein_1657467..1657697_NEGATIVE 281 87 42 82 42 smit:SMT_2031|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1945761..1945991_NEGATIVE 281 64 21 110 64 smit:SMT_103|5end_adenylosuccinate_synthetase_40766..40996_POSITIVE 276 82 42 96 56 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 276 90 43 174 133 smit:SMT_168|5end_anaerobic_ribonucleoside-triphosphate_reductase_activating_protein_113670..113900_POSITIVE 271 88 42 60 5 smit:SMT_1989|5end_multimodular_transpeptidase-transglycosylase_1917607..1917837_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 49 4 49 6 smit:SMT_920|3end_serine/threonine_protein_kinase_872588..872738_NEGATIVE 299 47 1 130 82 smit:SMT_1856|3end_polypeptide_deformylase_1820999..1821149_POSITIVE 299 47 1 130 82 smit:SMT_835|3end_polypeptide_deformylase_777124..777274_NEGATIVE 285 92 58 148 112 smit:SMT_1043|3end_chaperonin_GroEL_985110..985260_NEGATIVE 284 85 41 76 41 smit:SMT_958|3end_hypothetical_protein_predicted_by_Glimmer/Critica_905239..905389_POSITIVE 279 85 41 87 52 smit:SMT_2024|3end_hypothetical_protein_1940690..1940840_POSITIVE 279 85 41 76 41 smit:SMT_2002|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1924145..1924295_NEGATIVE 279 85 41 87 52 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 279 85 41 92 57 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 279 85 41 76 41 smit:SMT_1966|3end_DNA_polymerase_III_alpha_subunit_1898328..1898478_POSITIVE 279 85 41 87 52 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE 279 85 41 76 41 smit:SMT_1927|3end_cell_division_protein_FtsH_1868408..1868558_NEGATIVE 279 85 41 87 52 smit:SMT_1926|3end_mevalonate_kinase_1868062..1868212_POSITIVE 279 85 41 87 52 smit:SMT_1887|3end_LicC_protein_1841740..1841890_POSITIVE 279 85 41 76 41 smit:SMT_1885|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1839830..1839980_NEGATIVE 279 85 41 76 41 smit:SMT_1873|3end_K02006_cobalt_transport_system_ATP-binding_protein_1832351..1832501_POSITIVE 279 85 41 92 57 smit:SMT_1852|3end_1,4-alpha-glucan_branching_enzyme_1816467..1816617_NEGATIVE 279 80 31 104 53 smit:SMT_1667|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1657439..1657589_NEGATIVE 279 85 41 92 57 smit:SMT_326|3end_K02029_polar_amino_acid_transport_system_permease_protein_263217..263367_NEGATIVE 276 96 56 127 82 smit:SMT_137|3end_hypothetical_protein_88137..88287_NEGATIVE