Origin IGS: ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctctgtttcgttattgttttgattatgattccgattgttctgtttcacctctttaattcgtaagacctatctctaaaaacgatagcagatacctccgaactcgacttctactcc Mask Tandem Repeat Region ================================================ ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Find is-nt database================================================ Query_seq: PG0137:PG0138|PG0137:PG0138:aminoacyl-histidine dipeptidase:malonyl CoA-acyl carrier protein transacylase:->->:160699..160812 114 ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0137:PG0138|PG0137:PG0138:aminoacyl-histidine dipeptidase:malonyl CoA-acyl carrier protein transacylase:->->:160699..160812 114 ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0137:PG0138|PG0137:PG0138:aminoacyl-histidine dipeptidase:malonyl CoA-acyl carrier protein transacylase:->->:160699..160812 114 ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Predict ORF larger than 30AA ================================================ ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag 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================================================ ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0137:PG0138|PG0137:PG0138:aminoacyl-histidine dipeptidase:malonyl CoA-acyl carrier protein transacylase:->->:160699..160812 114 ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: NC_002950_PG0137_PG0138|aminoacyl-histidine dipeptidase:malonyl CoA-acyl carrier protein transacylase|POSITIVE:POSITIVE|[160699,160812]|114 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag ggagtagaagtcgagttcggaggtatctgctatcgtttttagagataggtcttacgaattaaagaggtgaaacagaacaatcggaatcataatcaaaacaataacgaaacagag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAGUAGAAGUCGAGUUCGGAGGUAUCUGCUAUCGUUUUUAGAGAUAGGUCUUACGAAUUAAAGAGGUGAAACAGAACAAUCGGAAUCAUAAUCAAAACAAUAACGAAACAGAG .((.((((..((((((((.....(((((.(((((.........))))).((....)).......))))).....))))..))))..)).)).)).................... (-14.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCUGUUUCGUUAUUGUUUUGAUUAUGAUUCCGAUUGUUCUGUUUCACCUCUUUAAUUCGUAAGACCUAUCUCUAAAAACGAUAGCAGAUACCUCCGAACUCGACUUCUACUCC ...(((((.(((((((((((.....(((..(.((....)).)..)))..........((....))..........))))))))))))))))....((....))........... (-15.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 50 1 225 161 NC_002950:PG0978|5end_shikimate_5-dehydrogenase_1040033..1040263_POSITIVE 333 50 1 198 137 NC_002950:PG0134|5end_magnesium_transporter_157135..157365_NEGATIVE 321 41 1 69 32 NC_002950:PG1352|5end_hypothetical_protein_1433150..1433380_NEGATIVE 319 57 12 60 10 NC_002950:PG0645|5end_hypothetical_protein_697959..698189_NEGATIVE 316 58 11 199 150 NC_002950:PG2129|5end_ISPg5,_transposase_Orf1_2235248..2235478_NEGATIVE 315 47 1 117 68 NC_002950:PG0734|5end_nitroreductase_family_protein_783773..784003_POSITIVE 310 49 1 219 175 NC_002950:PG1417|5end_fumarate_hydratase_class_I,_anaerobic_1501295..1501525_POSITIVE 302 50 1 199 151 NC_002950:PG1184|5end_alginate_O-acetyltransferase,_putative_1266870..1267100_NEGATIVE 297 50 1 147 100 NC_002950:PG0956|5end_peptidase,_M23/M37_family,_putative_1015797..1016027_POSITIVE 294 88 47 161 125 NC_002950:PG0214|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_250963..251193_POSITIVE 293 56 12 101 61 NC_002950:PG2010|5end_phosphomannomutase,_putative_2099220..2099450_POSITIVE 288 42 1 228 175 NC_002950:PG1559|5end_aminomethyltransferase_1638992..1639222_NEGATIVE 288 49 1 45 13 NC_002950:PG1088|5end_acetyltransferase,_GNAT_family_1155426..1155656_NEGATIVE 287 40 3 106 66 NC_002950:PG1053|5end_transcriptional_regulator,_putative_1120065..1120295_POSITIVE 286 47 8 105 66 NC_002950:PG1745|5end_phosphoribulokinase_family_protein_1831024..1831254_NEGATIVE 286 49 1 146 99 NC_002950:PG1522|5end_mandelate_racemase/muconate_lactonizing_enzyme_family_protein_1600170..1600400_NEGATIVE 286 36 4 175 136 NC_002950:PG1305|5end_glycine_dehydrogenase_1386538..1386768_NEGATIVE 285 32 1 228 199 NC_002950:PG1555|5end_hypothetical_protein_1636011..1636241_POSITIVE 283 59 13 180 133 NC_002950:PG1939|5end_30S_ribosomal_protein_S10_2025081..2025311_NEGATIVE 282 49 1 70 6 NC_002950:PG2161|5end_transcriptional_regulator,_AraC_family_2267616..2267846_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 28 1 133 104 NC_002950:PG0317|3end_peptidase,_M49_family_349771..349921_NEGATIVE 319 50 1 117 62 NC_002950:PG0656|3end_50S_ribosomal_protein_L34_706945..707095_NEGATIVE 315 47 1 120 71 NC_002950:PG0733|3end_riboflavin_synthase_subunit_alpha_783856..784006_POSITIVE 297 50 1 135 88 NC_002950:PG0955|3end_hypothetical_protein_1015865..1016015_POSITIVE 288 50 1 110 61 NC_002950:PG0199|3end_TatD_family_protein_237424..237574_NEGATIVE 287 40 3 87 47 NC_002950:PG1052|3end_transcriptional_regulator,_putative_1120126..1120276_POSITIVE 287 56 11 96 44 NC_002950:PG0625|3end_GTP_cyclohydrolase_I_679249..679399_POSITIVE 286 49 1 146 99 NC_002950:PG1523|3end_naphthoate_synthase_1600170..1600320_NEGATIVE 282 49 1 73 9 NC_002950:PG2162|3end_lipid_A_disaccharide_synthase_2267613..2267763_NEGATIVE 282 84 42 128 80 NC_002950:PG1714|3end_pyridoxamine-phosphate_oxidase_1801848..1801998_NEGATIVE 282 37 1 138 100 NC_002950:PG1560|3end_dTDP-glucose_4,6-dehydratase_1639067..1639217_NEGATIVE 279 50 10 100 42 NC_002950:PG0691|3end_NifU-related_protein_747185..747335_NEGATIVE 278 56 12 58 4 NC_002950:PG0636|3end_MATE_efflux_family_protein_687707..687857_NEGATIVE 268 39 6 134 97 NC_002950:PG1160|3end_L-threonine-O-3-phosphate_decarboxylase,_putative_1238981..1239131_NEGATIVE 266 59 11 77 39 NC_002950:PG0202|3end_uroporphyrinogen-III_synthase_HemD,_putative_238767..238917_NEGATIVE 265 49 9 47 1 NC_002950:PG2108|3end_thiazole_synthase_2216671..2216821_NEGATIVE 265 41 1 67 26 NC_002950:PG0982|3end_TPR_domain_protein_1046642..1046792_POSITIVE 265 60 11 99 26 NC_002950:PG0958|3end_ribonuclease_BN,_putative_1018135..1018285_NEGATIVE 264 55 12 68 24 NC_002950:PG0721|3end_NLP/P60_family_protein_774535..774685_POSITIVE 263 30 1 73 45 NC_002950:PG0883|3end_hypothetical_protein_946562..946712_POSITIVE