Origin IGS: ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt .........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 aacagcaaaaaaggatattaatgcaatggggagaatggaagtacagccctgccaaagctatacttccatttccaaagtattttgaatgtatctctcttattgcccgtgtttttaactatctttgcgactgcaaacaaggcgttatttctgctcgcctttcttttcaagatcatcattacaataactataataactataaggtattatcc Mask Tandem Repeat Region ================================================ ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Find is-nt database================================================ Query_seq: PG1082:PG1083|PG1082:PG1083:phosphotransacetylase:hypothetical protein:<-<-:1150774..1150982 209 ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1082:PG1083|PG1082:PG1083:phosphotransacetylase:hypothetical protein:<-<-:1150774..1150982 209 ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1082:PG1083|PG1082:PG1083:phosphotransacetylase:hypothetical protein:<-<-:1150774..1150982 209 ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Predict ORF larger than 30AA ================================================ Protein_Len: 59 Strand: + Start: 13 End: 189 ............ M V I I V I V M M I L K R K A S R N N A L F A V A K I V K N T G N K R D T F K I L W K W K Y S F G R A V L P F S P L H .................... Protein_Len: 33 Strand: + Start: 110 End: 208 ............................................................................................................. M R E I H S K Y F G N G S I A L A G L Y F H S P H C I N I L F C C . Protein_Len: 53 Strand: - Start: 3 End: 161 .. Y Y R I T I I T I T I I I K F L F A L L F L A K N A T A F I T L F V P L L L S V N L I S Q F H F Y L K P M ................................................ Protein_Len: 60 Strand: - Start: 1 End: 195 N N Y N N Y H H D Q F S L R A S I V G Q K C D C L Y N F V R A I L S I C E F Y K P F P L I A K A P S Y K W E G W Q M L M .............. ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt 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================================================ ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -12.9 Tail_Score: -3.3344 Start: 142 End: 174 Full_Region: AAAATACTTTGGAAA TGGAAGTATAGCTTT GGC AGGGCTGTACTTCCA TTCTCCCCATTGCAT .............................................................................................................................................TGGAAGTATAGCTTTGGCAGGGCTGTACTTCCA................................... TransTerm Strand: - Conf: 64 HP_score: -6.4 Tail_Score: -3.58731 Start: 142 End: 174 Full_Region: atgcaatggggagaa tggaagtacagc cctgccaaa gctatacttcca tttccaaagtatttt .............................................................................................................................................tggaagtacagccctgccaaagctatacttcca................................... Find igs database================================================ Query_seq: PG1082:PG1083|PG1082:PG1083:phosphotransacetylase:hypothetical protein:<-<-:1150774..1150982 209 ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Intra-Species Hit: Count: 1 Min: 1 Max: 209 Len: 209 Subject: NC_002950_PG1082_PG1083|phosphotransacetylase:hypothetical protein|NEGATIVE:NEGATIVE|[1150774,1150982]|209 HSP 1 e-value: 1.0E-115 bit: 414.0 Len: 209 Query Start:1 Query End:209 Subject Strand: POSITIVE Subject Start: 1 Subject End: 209 ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt ggataataccttatagttattatagttattgtaatgatgatcttgaaaagaaaggcgagcagaaataacgccttgtttgcagtcgcaaagatagttaaaaacacgggcaataagagagatacattcaaaatactttggaaatggaagtatagctttggcagggctgtacttccattctccccattgcattaatatccttttttgctgtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAUAAUACCUUAUAGUUAUUAUAGUUAUUGUAAUGAUGAUCUUGAAAAGAAAGGCGAGCAGAAAUAACGCCUUGUUUGCAGUCGCAAAGAUAGUUAAAAACACGGGCAAUAAGAGAGAUACAUUCAAAAUACUUUGGAAAUGGAAGUAUAGCUUUGGCAGGGCUGUACUUCCAUUCUCCCCAUUGCAUUAAUAUCCUUUUUUGCUGUU (((((...((.....((((((((((...)))))))))).(((((.....((...((((((((..........))))))))..))...)))))............))(((((..(.((((....((((((....)))))).(((((((((((((((.....))))))))))))))))))))..))))).....)))))............ (-54.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACAGCAAAAAAGGAUAUUAAUGCAAUGGGGAGAAUGGAAGUACAGCCCUGCCAAAGCUAUACUUCCAUUUCCAAAGUAUUUUGAAUGUAUCUCUCUUAUUGCCCGUGUUUUUAACUAUCUUUGCGACUGCAAACAAGGCGUUAUUUCUGCUCGCCUUUCUUUUCAAGAUCAUCAUUACAAUAACUAUAAUAACUAUAAGGUAUUAUCC ............(((((...((((.(((((((((.((((((((.(((.........))).)))))))))))))...(((...(((.((.((((......((((...(((..............)))...))))..((((((...........))))))........))))))))).)))..............))))...))))))))) (-42.04) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 914 90 41 181 132 NC_002950:PG1082|5end_phosphotransacetylase_1150683..1150913_NEGATIVE 329 196 152 194 151 NC_002950:PG2032|5end_primosomal_protein_N'_2133381..2133611_NEGATIVE 323 90 54 208 160 NC_002950:PG2070|5end_hypothetical_protein_2165541..2165771_POSITIVE 315 173 133 64 20 NC_002950:PG1576|5end_L-aspartate_oxidase_1653016..1653246_POSITIVE 302 186 141 171 131 NC_002950:PG0451|5end_CBS_domain_protein_491519..491749_POSITIVE 293 198 154 71 29 NC_002950:PG1369|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_1450407..1450637_NEGATIVE 293 180 131 151 103 NC_002950:PG0450|5end_hypothetical_protein_490812..491042_POSITIVE 289 188 149 227 189 NC_002950:PG1458|5end_hypothetical_protein_1539144..1539374_POSITIVE 288 181 160 73 52 NC_002950:PG0119|5end_glycosyl_transferase,_WecB/TagA/CpsF_family_142300..142530_POSITIVE 287 167 121 209 171 NC_002950:PG0802|5end_alpha_keto_acid_dehydrogenase_complex,_E3_component,_lipoamide_dehydrogenase_859722..859952_NEGATIVE 287 185 152 211 177 NC_002950:PG0417|5end_ATP-dependent_protease_ATP-binding_subunit_458624..458854_NEGATIVE 284 184 143 102 52 NC_002950:PG0400|5end_hypothetical_protein_437528..437758_NEGATIVE 280 89 48 202 145 NC_002950:PG0079|5end_abortive_infection_protein,_putative_93538..93768_NEGATIVE 279 180 141 231 196 NC_002950:PG0992|5end_threonyl-tRNA_synthetase_1054104..1054334_NEGATIVE 279 187 141 70 33 NC_002950:PG0006|5end_MATE_efflux_family_protein_6332..6562_NEGATIVE 278 118 72 211 158 NC_002950:PG2064|5end_hypothetical_protein_2160550..2160780_POSITIVE 278 180 135 96 41 NC_002950:PG1815|5end_3-deoxy-manno-octulosonate_cytidylyltransferase_1911433..1911663_NEGATIVE 278 96 55 214 177 NC_002950:PG0593|5end_htrA_protein_650362..650592_POSITIVE 277 190 141 217 169 NC_002950:PG2136|5end_hypothetical_protein_2243360..2243590_POSITIVE 276 187 155 122 91 NC_002950:PG1964|5end_bacterial_sugar_transferase_2052910..2053140_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 180 135 150 114 NC_002950:PG1860|3end_hypothetical_protein_1958574..1958724_NEGATIVE 314 180 133 139 95 NC_002950:PG2199|3end_ABC_transporter,_ATP-binding_protein,_putative_2304786..2304936_NEGATIVE 298 189 142 110 57 NC_002950:PG1846|3end_hypothetical_protein_1946254..1946404_POSITIVE 297 188 151 138 85 NC_002950:PG2069|3end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_2165609..2165759_POSITIVE 293 180 131 126 78 NC_002950:PG0449|3end_TPR_domain_protein_490867..491017_POSITIVE 288 181 160 37 16 NC_002950:PG0118|3end_glycosyl_transferase,_group_2_family_protein_142344..142494_POSITIVE 287 173 134 124 90 NC_002950:PG1184|3end_alginate_O-acetyltransferase,_putative_1265335..1265485_NEGATIVE 286 96 54 82 39 NC_002950:PG1247|3end_3-dehydroquinate_synthase_1325585..1325735_POSITIVE 285 176 133 89 34 NC_002950:PG2172|3end_hypothetical_protein_2279191..2279341_NEGATIVE 284 97 53 93 49 NC_002950:PG0799|3end_hypothetical_protein_854599..854749_POSITIVE 282 180 137 87 31 NC_002950:PG1556|3end_hypothetical_protein_1637001..1637151_POSITIVE 281 190 152 55 12 NC_002950:PG0597|3end_ribosomal_protein_L9_654281..654431_POSITIVE 278 180 135 99 44 NC_002950:PG1816|3end_NAD(P)H_dehydrogenase,_quinone_family,_putative_1911430..1911580_NEGATIVE 278 186 143 145 108 NC_002950:PG0725|3end_hydrolase,_haloacid_dehalogenase-like_family_777966..778116_POSITIVE 278 80 34 148 107 NC_002950:PG0010|3end_ATP-dependent_Clp_protease,_ATP-binding_subunit_ClpC_11434..11584_POSITIVE 276 187 155 125 94 NC_002950:PG1963|3end_Sua5/YciO/YrdC/YwlC_family_protein_2052993..2053143_POSITIVE 274 168 133 90 54 NC_002950:PG0758|3end_peptidyl-dipeptidase_Dcp_806467..806617_NEGATIVE 270 189 141 88 25 NC_002950:PG1968|3end_hypothetical_protein_2058460..2058610_NEGATIVE 269 188 141 69 24 NC_002950:PG1649|3end_hypothetical_protein_1730030..1730180_NEGATIVE 268 188 142 137 87 NC_002950:PG1638|3end_thioredoxin_family_protein_1718664..1718814_NEGATIVE