Origin IGS: atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaattatatgaaataagcaaatttactcgctaaaagtttgctatattcggcttttttcataactttgcctttagaattaaacaataatacaagtaaaatgatagaagaacaagagcttaaaccattcgttataggattggat Mask Tandem Repeat Region ================================================ atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Find is-nt database================================================ Query_seq: PI1254:PI1255|PI1254:PI1255:probable glucokinase:conserved hypothetical protein:->->:1176707..1176848 142 atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1254:PI1255|PI1254:PI1255:probable glucokinase:conserved hypothetical protein:->->:1176707..1176848 142 atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1254:PI1255|PI1254:PI1255:probable glucokinase:conserved hypothetical protein:->->:1176707..1176848 142 atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 11 End: 136 .......... M T N G L S S C S S I I L L V L L F N S K G K V M K K A E Y S K L L A S K F A Y F I ...... Protein_Len: 35 Strand: - Start: 1 End: 105 D L G I V F P K L E Q E E I M K S T N N N L E L P L T I F F A S Y L M ..................................... atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt 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: 82 Start: 30 End: 59 .............................CTTGTTCTTCTATCATTTTACTTGTATTAT................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1254:PI1255|PI1254:PI1255:probable glucokinase:conserved hypothetical protein:->->:1176707..1176848 142 atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Intra-Species Hit: Count: 1 Min: 1 Max: 142 Len: 142 Subject: pint_PI1254_PI1255|probable glucokinase:conserved hypothetical protein|POSITIVE:POSITIVE|[1176707,1176848]|142 HSP 1 e-value: 3.0E-75 bit: 281.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt atccaatcctataacgaatggtttaagctcttgttcttctatcattttacttgtattattgtttaattctaaaggcaaagttatgaaaaaagccgaatatagcaaacttttagcgagtaaatttgcttatttcatataattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCCAAUCCUAUAACGAAUGGUUUAAGCUCUUGUUCUUCUAUCAUUUUACUUGUAUUAUUGUUUAAUUCUAAAGGCAAAGUUAUGAAAAAAGCCGAAUAUAGCAAACUUUUAGCGAGUAAAUUUGCUUAUUUCAUAUAAUUU .................((((..(((((.................(((((((((....(((((..((((....(((...............)))))))..))))).......)))))))))...)))))..))))....... (-19.11) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUAUAUGAAAUAAGCAAAUUUACUCGCUAAAAGUUUGCUAUAUUCGGCUUUUUUCAUAACUUUGCCUUUAGAAUUAAACAAUAAUACAAGUAAAAUGAUAGAAGAACAAGAGCUUAAACCAUUCGUUAUAGGAUUGGAU ........((((...(((((((((.........)))))))))...)))).(((((.((((...(((((...((..(((....)))..))...))))))))).)))))..............((((((......))).))).. (-17.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 133 91 88 50 pint:PI0313|5end_conserved_hypothetical_protein_294833..295063_POSITIVE 256 117 71 143 93 pint:PI1833|5end_bacterioferritin_comigratory_protein_1773957..1774187_POSITIVE 245 116 73 47 10 pint:PI0283|5end_Zn-dependent_peptidase_267554..267784_POSITIVE 221 68 24 103 61 pint:PI1656|5end_hypothetical_protein_1570242..1570472_POSITIVE 220 125 89 199 158 pint:PI1258|5end_elongation_factor_Tu_1178909..1179139_POSITIVE 217 116 76 208 175 pint:PI0572|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_516382..516612_POSITIVE 215 84 42 57 16 pint:PI0363|5end_hypothetical_protein_332832..333062_POSITIVE 215 118 75 64 24 pint:PI0102|5end_hypothetical_protein_97856..98086_POSITIVE 213 105 69 48 12 pint:PI1374|5end_tetraacyldisaccharide_4'-kinase_1294725..1294955_POSITIVE 213 59 12 192 142 pint:PI1084|5end_threonyl-tRNA_synthetase_1002664..1002894_POSITIVE 212 97 74 152 131 pint:PI1440|5end_conserved_hypothetical_protein_1357185..1357415_POSITIVE 210 55 20 223 185 pint:PI1621|5end_hypothetical_protein_1545424..1545654_POSITIVE 208 54 14 126 95 pint:PI2104|5end_carboxyl-terminal_protease_2057910..2058140_POSITIVE 208 133 91 45 5 pint:PI0364|5end_hypothetical_protein_334002..334232_POSITIVE 202 117 71 230 193 pint:PI0400|5end_conserved_hypothetical_protein_364429..364659_POSITIVE 201 86 42 219 178 pint:PI2095|5end_hypothetical_protein_2049195..2049425_POSITIVE 201 86 42 214 173 pint:PI2093|5end_hypothetical_protein_2049190..2049420_POSITIVE 201 86 42 204 163 pint:PI2092|5end_hypothetical_protein_2049180..2049410_POSITIVE 201 48 1 48 3 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 201 120 74 159 97 pint:PI0555|5end_conserved_hypothetical_protein_504577..504807_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 133 91 143 105 pint:PI0311|3end_hypothetical_protein_294968..295118_POSITIVE 296 133 91 115 77 pint:PI0312|3end_hypothetical_protein_294940..295090_POSITIVE 256 117 71 129 79 pint:PI1832|3end_conserved_hypothetical_protein_1774023..1774173_POSITIVE 224 120 75 62 8 pint:PI2010|3end_ABC_transporter,_permease_component_1970242..1970392_POSITIVE 224 36 3 136 95 pint:PI0837|3end_conserved_hypothetical_protein_772681..772831_POSITIVE 222 42 2 148 109 pint:PI1671|3end_hypothetical_protein_1586653..1586803_POSITIVE 212 117 72 151 108 pint:PI1414|3end_conserved_hypothetical_protein_1334436..1334586_POSITIVE 208 54 14 70 39 pint:PI2103|3end_hypothetical_protein_2057934..2058084_POSITIVE 206 120 71 77 26 pint:PI0058|3end_conserved_hypothetical_protein_57044..57194_POSITIVE 203 116 77 121 78 pint:PI1145|3end_50S_ribosomal_protein_L35_1072794..1072944_POSITIVE 201 48 1 51 6 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 201 120 74 101 39 pint:PI0554|3end_hypothetical_protein_504599..504749_POSITIVE 200 31 1 68 37 pint:PI2027|3end_arginine_decarboxylase_1982130..1982280_POSITIVE 200 115 73 58 8 pint:PI1221|3end_penicillin-binding_protein_1A_1142855..1143005_POSITIVE 200 114 84 144 107 pint:PI0359|3end_hypothetical_protein_328835..328985_POSITIVE 199 118 73 86 32 pint:PI0204|3end_dGTP_triphosphohydrolase_(deoxyguanosinetriphosphate_triphosphohydrolase)_197545..197695_POSITIVE 197 101 69 73 43 pint:PI0206|3end_TPR-repeat-containing_protein_199856..200006_POSITIVE 196 65 28 85 48 pint:PI0337|3end_hypothetical_protein_315402..315552_POSITIVE 194 76 34 110 62 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE 193 127 92 49 9 pint:PI1970|3end_hypothetical_protein_1927882..1928032_POSITIVE