Origin IGS: ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatatgaaatcaaccaaaaaagaaatacaagccatcaaaacacttttaaaaaactctagtacaactaaataccataaaagtcttcaaatcgttctattttgtctaatgggcaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc .........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 gaatatttcagaattttttaaaatttttcgaaaattctttcataattctttcaattcttttaggataatttcaaagatttgcccattagacaaaatagaacgatttgaagacttttatggtatttagttgtactagagttttttaaaagtgttttgatggcttgtatttcttttttggttgatttcatatcactattatataatgcgttttgattttagtatagtattaaactaactcttgcagtcggacaaaaaatcgacagttattttatactgtttaaaaccaatagtcaatacgacaatctctttacttttcggttatcaactctgtagattgctaacatatccaaaataagccaagtatcccgaggataggcaacagaaatgaa Mask Tandem Repeat Region ================================================ ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatatgaaatcaaccaaaaaagaaatacaagccatcaaaacacttttaaaaaactctagtacaactaaataccataaaagtcttcaaatcgttctattttgtctaatgggcaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc Find is-nt database================================================ Query_seq: SMT_1600:SMT_1601|SMT_1600:SMT_1601:malolactic enzyme:hypothetical protein predicted by Glimmer/Critica:->->:1591707..1592095 389 ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatatgaaatcaaccaaaaaagaaatacaagccatcaaaacacttttaaaaaactctagtacaactaaataccataaaagtcttcaaatcgttctattttgtctaatgggcaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1600:SMT_1601|SMT_1600:SMT_1601:malolactic enzyme:hypothetical protein predicted by Glimmer/Critica:->->:1591707..1592095 389 ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatatgaaatcaaccaaaaaagaaatacaagccatcaaaacacttttaaaaaactctagtacaactaaataccataaaagtcttcaaatcgttctattttgtctaatgggcaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1600:SMT_1601|SMT_1600:SMT_1601:malolactic enzyme:hypothetical protein predicted by Glimmer/Critica:->->:1591707..1592095 389 ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatatgaaatcaaccaaaaaagaaatacaagccatcaaaacacttttaaaaaactctagtacaactaaataccataaaagtcttcaaatcgttctattttgtctaatgggcaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 202 Max: 309 Len: 108 Subject: UniRef90_Q97T68 Cluster: Hypothetical protein; n=6; Streptococcus pneumoniae|Rep: Hypothetical protein - Streptococcus pneumoniae HSP 1 e-value: 5.0E-9 bit: 62.4 Len: 108 Query Start:202 Query End:309 Subject Strand: null Subject Start: 1 Subject End: 36 ......................................................................................................................................................................................................... M K S T K K E I Q A I K T L L K N S S T T K Y H K S L Q I V L F C L M G ................................................................................ ......................................................................................................................................................................................................... M K S T K E E I Q T I K T L L K D S R T A K Y H K R L Q I V L F C L M G ................................................................................ ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 4 End: 96 ... M S V A Y P R D T W L I L D M L A I Y R V D N R K V K R L S Y ..................................................................................................................................................................................................................................................................................................... Protein_Len: 42 Strand: + Start: 202 End: 327 ......................................................................................................................................................................................................... M K S T K K E I Q A I K T L L K N S S T T K Y H K S L Q I V L F C L M G K S L K L S .............................................................. Protein_Len: 40 Strand: - Start: 266 End: 385 ......................................................................................................................................................................................................................................................................... I G Y F D E F R E I K D L P C I K S I I R F S N F S N H F F K R F I K F F E S M .... Protein_Len: 35 Strand: - Start: 60 End: 164 ........................................................... L T S L R F T F L N D Y Q S N T K F L I F Y S D I K Q G V A L T L K M ................................................................................................................................................................................................................................. Protein_Len: 38 Strand: - Start: 38 End: 151 ..................................... K P Y T L L R C L Q Y G F L L S I T T N V I P K L C Y L I V T S K K D S Q M .............................................................................................................................................................................................................................................. ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc 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: 87 Start: 95 End: 124 ..............................................................................................ATTGACTATTGGTTTTAAACAGTATAAAAT......................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 344 End: 373 .......................................................................................................................................................................................................................................................................................................................................................TTTAAAATTTTTCGAAAATTCTTTCATAAT................ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 296 End: 325 .......................................................................................................................................................................................................................................................................................................TTTGTCTAATGGGCAAATCTTTGAAATTAT................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1600:SMT_1601|SMT_1600:SMT_1601:malolactic enzyme:hypothetical protein predicted by Glimmer/Critica:->->:1591707..1592095 389 ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaaatctttgaaattatcctaaaagaattgaaagaattatgaaagaattttcgaaaaattttaaaaaattctgaaatattc Intra-Species Hit: Count: 1 Min: 1 Max: 201 Len: 201 Subject: smit_SMT_1600_SMT_1601|malolactic enzyme:hypothetical protein predicted by Glimmer/Critica|POSITIVE:POSITIVE|[1591707,1592095]|389 HSP 1 e-value: 1.0E-110 bit: 398.0 Len: 201 Query Start:1 Query End:201 Subject Strand: POSITIVE Subject Start: 1 Subject End: 201 ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgat............................................................................................................................................................................................ ttcatttctgttgcctatcctcgggatacttggcttattttggatatgttagcaatctacagagttgataaccgaaaagtaaagagattgtcgtattgactattggttttaaacagtataaaataactgtcgattttttgtccgactgcaagagttagtttaatactatactaaaatcaaaacgcattatataatagtgat............................................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCAUUUCUGUUGCCUAUCCUCGGGAUACUUGGCUUAUUUUGGAUAUGUUAGCAAUCUACAGAGUUGAUAACCGAAAAGUAAAGAGAUUGUCGUAUUGACUAUUGGUUUUAAACAGUAUAAAAUAACUGUCGAUUUUUUGUCCGACUGCAAGAGUUAGUUUAAUACUAUACUAAAAUCAAAACGCAUUAUAUAAUAGUGAU ...((((((...((((((((...)))))...)))...((((((...(((((((..((....))))))))).)))))).....)))))).(((.....)))..(((((((((...((((((((.(((((((((((.....)).))))......))))).))).)))))....)))))))))....((((((...)))))).. (-35.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCACUAUUAUAUAAUGCGUUUUGAUUUUAGUAUAGUAUUAAACUAACUCUUGCAGUCGGACAAAAAAUCGACAGUUAUUUUAUACUGUUUAAAACCAAUAGUCAAUACGACAAUCUCUUUACUUUUCGGUUAUCAACUCUGUAGAUUGCUAACAUAUCCAAAAUAAGCCAAGUAUCCCGAGGAUAGGCAACAGAAAUGAA ...............(((((.((((((((((.(((((((.(((.(((((......(((((........)))))))))).))))))))))))))).......))))).))).))....................(((..(((((.(((((....)).)))........(((...(((((...)))))))).)))))..))). (-32.01) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 317 69 21 194 140 smit:SMT_2000|5end_hypothetical_protein_1923108..1923338_NEGATIVE 285 56 11 186 132 smit:SMT_961|5end_K02016_iron_complex_transport_system_substrate-binding_protein_907809..908039_NEGATIVE 280 58 18 51 12 smit:SMT_1173|5end_CMP-N-acetylneuraminate-beta-galactosamide-alpha_-2,3-sialyltransferase_1125620..1125850_NEGATIVE 274 49 7 68 9 smit:SMT_1131|5end_threonine_synthase_1066755..1066985_NEGATIVE 270 39 4 231 188 smit:SMT_1371|5end_hypothetical_protein_1350794..1351024_NEGATIVE 257 56 18 79 33 smit:SMT_1447|5end_hypothetical_protein_1430476..1430706_NEGATIVE 256 40 7 175 124 smit:SMT_1021|5end_K05846_osmoprotectant_transport_system_permease_protein_957999..958229_NEGATIVE 254 43 2 62 21 smit:SMT_309|5end_acyl-carrier-protein_S-malonyltransferase_250406..250636_POSITIVE 249 47 1 134 87 smit:SMT_748|5end_prephenate_dehydratase_653498..653728_NEGATIVE 247 167 127 88 57 smit:SMT_704|5end_Cof_family_protein_613662..613892_POSITIVE 242 36 11 221 193 smit:SMT_1047|5end_chaperonin,_10_kDa_988090..988320_NEGATIVE 241 69 21 212 163 smit:SMT_1381|5end_gamma-glutamyl_phosphate_reductase_1359730..1359960_NEGATIVE 237 37 2 69 22 smit:SMT_1181|5end_phosphotransferase_system,_mannose/fructose-specific_component_IIA_1139817..1140047_NEGATIVE 237 69 22 224 176 smit:SMT_908|5end_hypothetical_protein_857230..857460_NEGATIVE 236 159 113 92 39 smit:SMT_1722|5end_x-prolyl-dipeptidyl_aminopeptidase_1707529..1707759_POSITIVE 235 50 8 51 7 smit:SMT_875|5end_nitroreductase_family_protein_823384..823614_NEGATIVE 232 69 22 230 183 smit:SMT_2096|5end_ATP-dependent_exonuclease_RexB_1990380..1990610_NEGATIVE 231 115 73 95 59 smit:SMT_1810|5end_hypothetical_protein_1785219..1785449_POSITIVE 231 36 5 140 98 smit:SMT_1043|5end_chaperonin_GroEL_985766..985996_NEGATIVE 231 60 11 58 11 smit:SMT_596|5end_K03976_putative_transcription_regulator_513075..513305_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 56 13 108 61 smit:SMT_1742|3end_sodium-dependent_phosphate_transporter_1724991..1725141_POSITIVE 290 57 12 74 18 smit:SMT_1641|3end_arginyl-tRNA_synthetase_1626562..1626712_NEGATIVE 280 58 18 54 15 smit:SMT_1174|3end_acylneuraminate_cytidylyltransferase_1125617..1125767_NEGATIVE 256 97 53 67 19 smit:SMT_865|3end_50S_ribosomal_protein_L1_815022..815172_NEGATIVE 254 43 2 69 28 smit:SMT_308|3end_trans-2-enoyl-ACP_reductase_II_250493..250643_POSITIVE 253 61 22 59 17 smit:SMT_1877|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1835261..1835411_POSITIVE 249 47 1 137 90 smit:SMT_749|3end_shikimate_kinase_653495..653645_NEGATIVE 247 167 127 75 44 smit:SMT_703|3end_hypothetical_protein_613729..613879_POSITIVE 243 42 2 151 105 smit:SMT_962|3end_putative_hemin_transport_system_ATP-binding_protein_fecE_907829..907979_NEGATIVE 237 37 2 65 18 smit:SMT_1182|3end_K02796_PTS_system,_mannose-specific_IID_component_1139821..1139971_NEGATIVE 236 159 113 68 15 smit:SMT_1721|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1707585..1707735_POSITIVE 235 50 8 64 20 smit:SMT_876|3end_hypothetical_protein_predicted_by_Glimmer/Critica_823371..823521_NEGATIVE 232 69 22 135 88 smit:SMT_2097|3end_type_I_restriction_enzyme_M_protein_1990475..1990625_NEGATIVE 231 60 11 58 11 smit:SMT_597|3end_K08974_putative_membrane_protein_513075..513225_NEGATIVE 230 60 11 99 41 smit:SMT_1329|3end_GTP-binding_protein_CgtA_1304478..1304628_NEGATIVE 229 165 126 88 45 smit:SMT_626|3end_1,4-alpha-glucan_branching_enzyme_531789..531939_POSITIVE 228 44 9 139 108 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 227 54 13 151 112 smit:SMT_1898|3end_aminotransferase_(class_V),_putative_1848877..1849027_NEGATIVE 224 60 14 123 78 smit:SMT_1646|3end_3-isopropylmalate_dehydratase_large_subunit_1633473..1633623_POSITIVE 224 46 1 74 29 smit:SMT_396|3end_putative_nicotinate_phosphoribosyltransferase_326602..326752_POSITIVE