Origin IGS: agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt .........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 actcgaaagggtgtttgcccggcaggtttatgcacagatgcgaaaggattcggtgctgcactgatgcctttgcggaggcggatactttaccggaacactcgtttgtgggaggtagtatccacggcacaggtcacagcaataaaaaaaataatcgttcccggccggaaaaagttttttctgcagtacggaaaagttgaaaagccataatccaattct Mask Tandem Repeat Region ================================================ agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Find is-nt database================================================ Query_seq: PG0662:PG0664|PG0662:PG0664:hypothetical protein:oxidoreductase, Gfo/Idh/MocA family:->->:710217..710432 216 agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0662:PG0664|PG0662:PG0664:hypothetical protein:oxidoreductase, Gfo/Idh/MocA family:->->:710217..710432 216 agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0662:PG0664|PG0662:PG0664:hypothetical protein:oxidoreductase, Gfo/Idh/MocA family:->->:710217..710432 216 agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 5 End: 127 .... M D Y G F S T F P Y C R K N F F R P G T I I F F I A V T C A V D T T S H K R V F R ......................................................................................... Protein_Len: 60 Strand: + Start: 4 End: 186 ... M G L W L F N F S V L Q K K L F P A G N D Y F F Y C C D L C R G Y Y L P Q T S V P V K Y P P P Q R H Q C S T E S F R I C .............................. Protein_Len: 42 Strand: + Start: 90 End: 215 ......................................................................................... M P W I L P P T N E C S G K V S A S A K A S V Q H R I L S H L C I N L P G K H P F E . Protein_Len: 60 Strand: - Start: 23 End: 202 ...................... S K R V A S F V K E P R S R N N K K N S H G T G H I S G G V F S H E P L T D A E A F A D T C C R I R E C R H M F R G P M .............. Protein_Len: 48 Strand: - Start: 13 End: 156 ............ P K E V K G Y Q L F F K K R G P V I I K K I A T V Q A T S V V E W L R T N R Y L I R R R L P M M ............................................................ agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt 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================================================ agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0662:PG0664|PG0662:PG0664:hypothetical protein:oxidoreductase, Gfo/Idh/MocA family:->->:710217..710432 216 agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Intra-Species Hit: Count: 1 Min: 1 Max: 216 Len: 216 Subject: NC_002950_PG0662_PG0664|hypothetical protein:oxidoreductase, Gfo/Idh/MocA family|POSITIVE:POSITIVE|[710217,710432]|216 HSP 1 e-value: 1.0E-105 bit: 381.0 Len: 216 Query Start:1 Query End:216 Subject Strand: POSITIVE Subject Start: 1 Subject End: 216 agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattannnnnnnnattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt agaattggattatggcttttcaacttttccgtactgcagaaaaaactttttccggccgggaacgattattttttttattgctgtgacctgtgccgtggatactacctcccacaaacgagtgttccggtaaagtatccgcctccgcaaaggcatcagtgcagcaccgaatcctttcgcatctgtgcataaacctgccgggcaaacaccctttcgagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAUUGGAUUAUGGCUUUUCAACUUUUCCGUACUGCAGAAAAAACUUUUUCCGGCCGGGAACGAUUAUUUUUUUUAUUGCUGUGACCUGUGCCGUGGAUACUACCUCCCACAAACGAGUGUUCCGGUAAAGUAUCCGCCUCCGCAAAGGCAUCAGUGCAGCACCGAAUCCUUUCGCAUCUGUGCAUAAACCUGCCGGGCAAACACCCUUUCGAGU .(((..((................(((((.(.....).))))).......((((((.((....................((((((.(((.(((.((((((((((((...(((......)))....)))..)))))))))....))).))))).))))...((((((((....)))).....)))).....)).))))))......))..))).... (-56.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUCGAAAGGGUGUUUGCCCGGCAGGUUUAUGCACAGAUGCGAAAGGAUUCGGUGCUGCACUGAUGCCUUUGCGGAGGCGGAUACUUUACCGGAACACUCGUUUGUGGGAGGUAGUAUCCACGGCACAGGUCACAGCAAUAAAAAAAAUAAUCGUUCCCGGCCGGAAAAAGUUUUUUCUGCAGUACGGAAAAGUUGAAAAGCCAUAAUCCAAUUCU ((((....)))).(((((.(.(((......)))...)..))))).((((((.(((((((.(((.(((((.(((.(....(((((((..(((....(((......)))...)))))))))).).))).))).)))))......(((((((.....((((.....))))...)))))))..))))))).))...(((....)))....))))...... (-61.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 689 70 21 92 43 NC_002950:PG0722|5end_hypothetical_protein_774891..775121_NEGATIVE 438 167 121 170 123 NC_002950:PG1398|5end_hypothetical_protein_1480694..1480924_POSITIVE 401 199 151 170 130 NC_002950:PG0086|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_102359..102589_NEGATIVE 390 170 121 69 1 NC_002950:PG0028|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_33863..34093_POSITIVE 382 167 124 157 112 NC_002950:PG0746|5end_sensor_histidine_kinase_793903..794133_NEGATIVE 379 186 141 195 141 NC_002950:PG0242|5end_conserved_hypothetical_protein_TIGR00096_278960..279190_NEGATIVE 373 159 114 199 145 NC_002950:PG0795|5end_hypothetical_protein_848813..849043_POSITIVE 371 200 151 211 168 NC_002950:PG1075|5end_coenzyme_A_transferase,_beta_subunit_1142778..1143008_POSITIVE 366 180 137 153 109 NC_002950:PG1582|5end_batA_protein_1659321..1659551_POSITIVE 366 100 51 231 181 NC_002950:PG1024|5end_hypothetical_protein_1086698..1086928_POSITIVE 365 163 121 220 163 NC_002950:PG0704|5end_phosphoglycerate_mutase_family_protein_758928..759158_POSITIVE 364 169 122 100 39 NC_002950:PG1970|5end_hypothetical_protein_2059783..2060013_NEGATIVE 356 176 132 202 140 NC_002950:PG2028|5end_ebsC_protein_2126027..2126257_POSITIVE 349 139 91 174 118 NC_002950:PG0248|5end_translation_initation_factor_SUI1,_putative_281842..282072_NEGATIVE 346 167 121 60 9 NC_002950:PG0695|5end_immunoreactive_43_kDa_antigen_PG32_752067..752297_NEGATIVE 346 167 122 217 159 NC_002950:PG0093|5end_HlyD_family_secretion_protein_109638..109868_NEGATIVE 344 138 94 67 19 NC_002950:PG0073|5end_orotidine_5'-monophosphate_decarboxylase_88070..88300_NEGATIVE 342 99 52 231 184 NC_002950:PG1952|5end_DedA_family_protein_2042870..2043100_POSITIVE 341 129 81 57 13 NC_002950:PG2174|5end_hypothetical_protein_2282578..2282808_NEGATIVE 339 95 51 229 189 NC_002950:PG0718|5end_hypothetical_protein_771573..771803_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 99 51 111 66 NC_002950:PG0719|3end_sensor_histidine_kinase_771696..771846_NEGATIVE 386 176 136 69 8 NC_002950:PG0027|3end_hypothetical_protein_33936..34086_POSITIVE 349 139 91 77 21 NC_002950:PG0249|3end_oxaloacetate_decarboxylase,_putative_281939..282089_NEGATIVE 348 154 114 150 103 NC_002950:PG0794|3end_penicillin-binding_protein_1A,_putative_848851..849001_POSITIVE 345 207 162 63 19 NC_002950:PG1105|3end_RNA_polymerase_sigma-54_factor_1175716..1175866_NEGATIVE 344 138 94 50 2 NC_002950:PG0074|3end_peptide_chain_release_factor_1_88087..88237_NEGATIVE 340 167 124 120 57 NC_002950:PG1391|3end_hypothetical_protein_1472961..1473111_POSITIVE 339 88 44 123 67 NC_002950:PG2216|3end_hypothetical_protein_2329530..2329680_POSITIVE 338 176 136 133 101 NC_002950:PG2040|3end_DNA-binding_protein,_histone-like_family_2138398..2138548_NEGATIVE 338 158 116 67 12 NC_002950:PG0844|3end_hypothetical_protein_905461..905611_POSITIVE 336 60 17 80 33 NC_002950:PG0164|3end_hypothetical_protein_187081..187231_NEGATIVE 334 204 161 123 68 NC_002950:PG1370|3end_lysyl-tRNA_synthetase_1450493..1450643_NEGATIVE 334 200 151 106 66 NC_002950:PG0267|3end_arginyl-tRNA_synthetase_300973..301123_POSITIVE 332 200 152 147 101 NC_002950:PG1753|3end_selenide,_water_dikinase_1839741..1839891_POSITIVE 332 157 113 148 99 NC_002950:PG0094|3end_outer_membrane_efflux_protein,_putative_109688..109838_NEGATIVE 331 198 151 144 89 NC_002950:PG2086|3end_hypothetical_protein_2187070..2187220_POSITIVE 331 160 118 62 3 NC_002950:PG0053|3end_hypothetical_protein_64967..65117_NEGATIVE 329 180 135 67 5 NC_002950:PG1345|3end_glycosyl_transferase,_group_1_family_protein_1426791..1426941_POSITIVE 329 168 124 138 101 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE 328 166 122 115 65 NC_002950:PG1978|3end_hypothetical_protein_2066723..2066873_NEGATIVE