Origin IGS: tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga .........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 tcctaaatttttattttttatttttaagtaatattaaagtattatgttgctattttcaaacttaattacgctcatttctcccctctcctttcaaaataaaatgaatatatgttaaatttaattgctaactttattaaaatttctgattattttcattgtgtagaatataagattttttaggttttgttgtaataatttttgtagtaatcttattttatatttttattatataaaataataacgacatattttgtcattatcaaaaaaatatttttattttttaaatttttactattattatatatatagtattatactagtattttttttgtcaatcacttttttaaaattaaaataaattttataatcttacacaaaaataggttaaattttattctaattaaattatttgtattttaatttaatcttaatttttctatgatataatataaaaaatatttttaaagggaataaaagtttcaagggggaata Mask Tandem Repeat Region ================================================ tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga Find is-nt database================================================ Query_seq: FN1094:FN1095|FN1094:FN1095:Dolichol-phosphate mannosyltransferase:hypothetical protein:<-->:1739880..1740371 492 tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1094:FN1095|FN1094:FN1095:Dolichol-phosphate mannosyltransferase:hypothetical protein:<-->:1739880..1740371 492 tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1094:FN1095|FN1094:FN1095:Dolichol-phosphate mannosyltransferase:hypothetical protein:<-->:1739880..1740371 492 tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 188 End: 280 ........................................................................................................................................................................................... M Y N N S K N L K N K N I F L I M T K Y V V I I L Y N K N I K .................................................................................................................................................................................................................... Protein_Len: 31 Strand: + Start: 280 End: 372 ....................................................................................................................................................................................................................................................................................... M R L L Q K L L Q Q N L K N L I F Y T M K I I R N F N K V S N ........................................................................................................................ Protein_Len: 30 Strand: - Start: 187 End: 276 .......................................................................................................................................................................................... I Y L L L L F K F F L F I K K I I V F Y T T I I K Y L L F M ........................................................................................................................................................................................................................ Protein_Len: 36 Strand: - Start: 138 End: 245 ......................................................................................................................................... K L K L F T I S L F F V L I I S Y I Y Y Y Y F N L F Y F Y K K S L S L M ....................................................................................................................................................................................................................................................... Protein_Len: 32 Strand: - Start: 76 End: 171 ........................................................................... F V F L K I L I F N L R N K H L I I F N I K I K F F H N V F F M ................................................................................................................................................................................................................................................................................................................................. tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga 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: 86 Start: 229 End: 258 ....................................................................................................................................................................................................................................TTTGATAATGACAAAATATGTCGTTATTAT.......................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 433 End: 462 ................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGAAAATAGCAACATAATACTTTAATAT.............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 39 HP_score: -3.4 Tail_Score: -2.57344 Start: 238 End: 250 Full_Region: atataaaataataac gaca tattt tgtc attatcaaaaaaata .............................................................................................................................................................................................................................................gacatattttgtc.................................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 37 HP_score: -2.3 Tail_Score: -3.14881 Start: 253 End: 285 Full_Region: GACAAAATATGTCGT TATTATTTTATAT AATAAAA ATATAAAATAAGA TTACTACAAAAATTA ............................................................................................................................................................................................................................................................TATTATTTTATATAATAAAAATATAAAATAAGA............................................................................................................................................................................................................... Find igs database================================================ Query_seq: FN1094:FN1095|FN1094:FN1095:Dolichol-phosphate mannosyltransferase:hypothetical protein:<-->:1739880..1740371 492 tattcccccttgaaacttttattccctttaaaaatattttttatattatatcatagaaaaattaagattaaattaaaatacaaataatttaattagaataaaatttaacctatttttgtgtaagattataaaatttattttaattttaaaaaagtgattgacaaaaaaaatactagtataatactatatatataataatagtaaaaatttaaaaaataaaaatatttttttgataatgacaaaatatgtcgttattattttatataataaaaatataaaataagattactacaaaaattattacaacaaaacctaaaaaatcttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattacttaaaaataaaaaataaaaatttagga Intra-Species Hit: Count: 1 Min: 322 Max: 467 Len: 146 Subject: NC_003454_FN1094_FN1095|Dolichol-phosphate mannosyltransferase:hypothetical protein|NEGATIVE:POSITIVE|[1739880,1740371]|492 HSP 1 e-value: 5.0E-77 bit: 289.0 Len: 146 Query Start:322 Query End:467 Subject Strand: POSITIVE Subject Start: 322 Subject End: 467 .................................................................................................................................................................................................................................................................................................................................cttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattactt......................... .................................................................................................................................................................................................................................................................................................................................cttatattctacacaatgaaaataatcagaaattttaataaagttagcaattaaatttaacatatattcattttattttgaaaggagaggggagaaatgagcgtaattaagtttgaaaatagcaacataatactttaatattactt......................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAUAUUCUACACAAUGAAAAUAAUCAGAAAUUUUAAUAAAGUUAGCAAUUAAAUUUAACAUAUAUUCAUUUUAUUUUGAAAGGAGAGGGGAGAAAUGAGCGUAAUUAAGUUUGAAAAUAGCAACAUAAUACUUUAAUAUUACUU .((((.(((........))).)))).................((((....((((((((((..((..((((((((.((((.......))))...))))))))..)).))))))))))...))))....................... (-15.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUAAUAUUAAAGUAUUAUGUUGCUAUUUUCAAACUUAAUUACGCUCAUUUCUCCCCUCUCCUUUCAAAAUAAAAUGAAUAUAUGUUAAAUUUAAUUGCUAACUUUAUUAAAAUUUCUGAUUAUUUUCAUUGUGUAGAAUAUAAG .((((((((.........))))))))..............((((((...........................((((.((((...((((...........))))..))))...)))).(((......)))..))))))........ (-11.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 199 95 68 164 135 NC_003454:FN1302|5end_hypothetical_protein_1959369..1959599_POSITIVE 199 127 81 47 6 NC_003454:FN2003|5end_bioY_protein_503745..503975_POSITIVE 193 102 77 143 112 NC_003454:FN0839|5end_hypothetical_protein_1501426..1501656_NEGATIVE 185 108 88 170 151 NC_003454:FN0161|5end_RNA-directed_DNA_polymerase_788763..788993_POSITIVE 176 106 64 134 77 NC_003454:FN1238|5end_hypothetical_protein_1896291..1896521_NEGATIVE 176 116 73 60 14 NC_003454:FN1509|5end_hypothetical_protein_14176..14406_NEGATIVE 173 77 32 105 62 NC_003454:FN0088|5end_hypothetical_protein_724887..725117_POSITIVE 170 85 42 219 172 NC_003454:FN0316|5end_hypothetical_protein_953689..953919_NEGATIVE 170 130 81 59 6 NC_003454:FN0194|5end_Dipeptide_transport_system_permease_protein_dppC_819839..820069_POSITIVE 170 106 83 157 131 NC_003454:FN1894|5end_BAX_protein_382342..382572_NEGATIVE 168 116 71 207 162 NC_003454:FN1337|5end_hypothetical_protein_1991481..1991711_NEGATIVE 166 97 54 135 82 NC_003454:FN0261|5end_Pyruvate_formate-lyase_activating_enzyme_887510..887740_NEGATIVE 163 105 83 215 187 NC_003454:FN0234|5end_hypothetical_protein_859499..859729_NEGATIVE 162 126 91 231 189 NC_003454:FN0955|5end_hypothetical_protein_1612455..1612685_NEGATIVE 162 116 74 211 151 NC_003454:FN0047|5end_Exodeoxyribonuclease_III_684427..684657_POSITIVE 162 84 41 190 147 NC_003454:FN2076|5end_MunI_regulatory_protein_587766..587996_NEGATIVE 162 93 74 39 21 NC_003454:FN1810|5end_Manganese_transport_system_membrane_protein_mntB_291953..292183_NEGATIVE 161 129 90 184 144 NC_003454:FN1427|5end_Phenazine_biosynthesis_protein_phzF_2095802..2096032_POSITIVE 161 88 65 158 134 NC_003454:FN0751|5end_L-asparaginase_I_1410731..1410961_NEGATIVE 161 38 1 140 100 NC_003454:FN2128|5end_RECF_protein_639585..639815_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 199 95 68 83 54 NC_003454:FN1301|3end_ABC_transporter_ATP-binding_protein_1959368..1959518_POSITIVE 178 130 89 63 24 NC_003454:FN0385|3end_hypothetical_protein_1018920..1019070_POSITIVE 176 116 73 137 91 NC_003454:FN1509|3end_hypothetical_protein_14099..14249_NEGATIVE 173 77 32 92 49 NC_003454:FN0087|3end_Ethanolamine_utilization_protein_eutN_724954..725104_POSITIVE 173 114 94 26 6 NC_003454:FN1742|3end_V-type_sodium_ATP_synthase_subunit_G_240464..240614_NEGATIVE 171 97 65 63 26 NC_003454:FN1426|3end_Serine_protease_2092577..2092727_NEGATIVE 170 85 42 89 42 NC_003454:FN0317|3end_tryptophan_synthase_subunit_beta_953819..953969_NEGATIVE 170 130 81 62 9 NC_003454:FN0193|3end_Dipeptide_transport_system_permease_protein_dppB_819922..820072_POSITIVE 168 116 71 134 89 NC_003454:FN1338|3end_hypothetical_protein_1991554..1991704_NEGATIVE 166 97 54 69 16 NC_003454:FN0262|3end_Formate_acetyltransferase_887576..887726_NEGATIVE 163 105 83 40 12 NC_003454:FN0235|3end_ABC_transporter_ATP-binding_protein_859674..859824_NEGATIVE 161 38 1 125 85 NC_003454:FN2129|3end_Hypothetical_cytosolic_protein_639600..639750_NEGATIVE 160 113 71 92 44 NC_003454:FN0483|3end_Uracil_phosphoribosyltransferase_1129301..1129451_POSITIVE 159 106 74 100 63 NC_003454:FN1467|3end_hypothetical_protein_2149841..2149991_POSITIVE 158 124 82 53 14 NC_003454:FN1988|3end_Tyrosine_phenol-lyase_492380..492530_POSITIVE 156 114 73 57 16 NC_003454:FN0781|3end_Integral_membrane_protein_1437511..1437661_NEGATIVE 148 128 99 36 1 NC_003454:FN1811|3end_Manganese_transport_system_ATP-binding_protein_mntA_292161..292311_NEGATIVE 147 101 67 50 20 NC_003454:FN1515|3end_Phophatidylinositol-4-phosphate_5-kinase_20652..20802_POSITIVE 146 104 65 54 23 NC_003454:FN0643|3end_hypothetical_protein_1299434..1299584_NEGATIVE 145 69 30 60 20 NC_003454:FN0963|3end_hypothetical_protein_1617130..1617280_NEGATIVE