Origin IGS: ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcgagtcccaaatatcgtccatccggcagggcgatcgcatttgaagtgttaacacacatataggcctgatgatgctccgtccggaataagcccgaattaatgtgttagagatcccaa Mask Tandem Repeat Region ================================================ ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Find is-nt database================================================ Query_seq: PG1787:PG1788|PG1787:PG1788:hypothetical protein:cysteine peptidase, putative:<-->:1875999..1876115 117 ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1787:PG1788|PG1787:PG1788:hypothetical protein:cysteine peptidase, putative:<-->:1875999..1876115 117 ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1787:PG1788|PG1787:PG1788:hypothetical protein:cysteine peptidase, putative:<-->:1875999..1876115 117 ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 17 End: 115 ................ M N S G L F R T E H H Q A Y M C V N T S N A I A L P D G R Y L G L .. Protein_Len: 37 Strand: + Start: 6 End: 116 ..... M S N T L I R A Y S G R S I I R P I C V L T L Q M R S P C R M D D I W D S . ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga 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================================================ ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1787:PG1788|PG1787:PG1788:hypothetical protein:cysteine peptidase, putative:<-->:1875999..1876115 117 ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Intra-Species Hit: Count: 1 Min: 1 Max: 117 Len: 117 Subject: NC_002950_PG1787_PG1788|hypothetical protein:cysteine peptidase, putative|NEGATIVE:POSITIVE|[1875999,1876115]|117 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 117 Query Start:1 Query End:117 Subject Strand: POSITIVE Subject Start: 1 Subject End: 117 ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga ttgggatctctaacacattaattcgggcttattccggacggagcatcatcaggcctatatgtgtgttaacacttcaaatgcgatcgccctgccggatggacgatatttgggactcga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGGGAUCUCUAACACAUUAAUUCGGGCUUAUUCCGGACGGAGCAUCAUCAGGCCUAUAUGUGUGUUAACACUUCAAAUGCGAUCGCCCUGCCGGAUGGACGAUAUUUGGGACUCGA (((((.....((((((((......((((((.((((....)))).......))))))....)))))))).....(((((((((.(((.((....)).))).)).)))))))..))))) (-27.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGAGUCCCAAAUAUCGUCCAUCCGGCAGGGCGAUCGCAUUUGAAGUGUUAACACACAUAUAGGCCUGAUGAUGCUCCGUCCGGAAUAAGCCCGAAUUAAUGUGUUAGAGAUCCCAA ........((((((((((((........)))))))...))))).....((((((((......((((.((((......)))).)).......)).......))))))))......... (-23.23) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1002 100 51 191 142 NC_002950:PG1787|5end_hypothetical_protein_1875908..1876138_NEGATIVE 420 98 51 231 185 NC_002950:PG1523|5end_naphthoate_synthase_1600988..1601218_NEGATIVE 357 54 24 34 1 NC_002950:PG0030|5end_cytidine_deaminase_35846..36076_POSITIVE 342 67 23 214 160 NC_002950:PG1902|5end_uridylate_kinase_2002147..2002377_NEGATIVE 332 47 7 228 187 NC_002950:PG0737|5end_hypothetical_protein_786188..786418_POSITIVE 326 68 22 227 160 NC_002950:PG1381|5end_ABC_transporter,_permease_protein_1460622..1460852_POSITIVE 326 65 27 77 36 NC_002950:PG0063|5end_outer_membrane_efflux_protein_77056..77286_NEGATIVE 314 110 80 129 88 NC_002950:PG1675|5end_hypothetical_protein_1760182..1760412_POSITIVE 314 95 61 46 15 NC_002950:PG1522|5end_mandelate_racemase/muconate_lactonizing_enzyme_family_protein_1600170..1600400_NEGATIVE 310 50 1 231 175 NC_002950:PG0295|5end_DNA_processing_protein_DprA,_putative_331300..331530_NEGATIVE 306 100 51 120 64 NC_002950:PG0065|5end_efflux_transporter,_RND_family,_MFP_subunit_81187..81417_NEGATIVE 306 100 51 87 25 NC_002950:PG0002|5end_hexapeptide_transferase_family_protein_1295..1525_POSITIVE 305 110 61 68 3 NC_002950:PG0960|5end_tRNA_(guanine-N(7)-)-methyltransferase_1021895..1022125_NEGATIVE 304 73 32 70 29 NC_002950:PG0573|5end_S-adenosyl-methyltransferase_MraW_628083..628313_POSITIVE 302 65 24 179 143 NC_002950:PG1852|5end_exonuclease_1951973..1952203_NEGATIVE 302 54 13 154 111 NC_002950:PG0423|5end_hypothetical_protein_462251..462481_POSITIVE 301 65 24 183 141 NC_002950:PG0525|5end_CTP_synthetase_568999..569229_POSITIVE 298 45 1 136 94 NC_002950:PG2123|5end_hypothetical_protein_2229891..2230121_POSITIVE 297 63 24 231 197 NC_002950:PG0320|5end_hypothetical_protein_353409..353639_POSITIVE 296 65 23 188 144 NC_002950:PG1620|5end_carboxyl-terminal_protease-related_protein_1700491..1700721_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 421 100 60 38 1 NC_002950:PG2094|3end_hypothetical_protein_2193321..2193471_NEGATIVE 361 90 42 72 24 NC_002950:PG0078|3end_hypothetical_protein_91566..91716_NEGATIVE 342 67 23 131 77 NC_002950:PG1903|3end_hypothetical_protein_2002230..2002380_NEGATIVE 335 100 52 144 78 NC_002950:PG1884|3end_alpha-L-fucosidase_precursor,_putative_1978968..1979118_NEGATIVE 326 65 27 59 18 NC_002950:PG0064|3end_heavy_metal_efflux_pump,_CzcA_family_77074..77224_NEGATIVE 316 89 46 62 21 NC_002950:PG0798|3end_ISPg3,_transposase_853827..853977_POSITIVE 314 95 61 46 15 NC_002950:PG1523|3end_naphthoate_synthase_1600170..1600320_NEGATIVE 313 45 1 125 95 NC_002950:PG2029|3end_hypothetical_protein_2129202..2129352_POSITIVE 306 100 51 74 12 NC_002950:PG0001|3end_chromosomal_replication_initiation_protein_1362..1512_POSITIVE 305 66 21 130 83 NC_002950:PG1416|3end_enoyl-(acyl-carrier-protein)_reductase_II_1501078..1501228_POSITIVE 305 65 22 148 103 NC_002950:PG1040|3end_transcriptional_regulator,_putative_1107485..1107635_NEGATIVE 305 99 53 142 96 NC_002950:PG0087|3end_SIS_domain_protein_102505..102655_NEGATIVE 301 65 24 67 25 NC_002950:PG0524|3end_hypothetical_protein_568963..569113_POSITIVE 300 55 16 48 8 NC_002950:PG1486|3end_conjugative_transposon_protein_TraA_1560357..1560507_NEGATIVE 299 58 22 147 107 NC_002950:PG1470|3end_hypothetical_protein_1548431..1548581_POSITIVE 297 63 23 109 67 NC_002950:PG0672|3end_iron_compound_ABC_transporter,_ATP-binding_protein_723840..723990_POSITIVE 295 67 21 149 102 NC_002950:PG1310|3end_exsB_protein_1389826..1389976_POSITIVE 293 110 79 119 87 NC_002950:PG1388|3end_hypothetical_protein_1470095..1470245_NEGATIVE 293 99 54 76 25 NC_002950:PG0606|3end_hypothetical_protein_662451..662601_NEGATIVE 291 65 25 107 56 NC_002950:PG1724|3end_O-sialoglycoprotein_endopeptidase_1814846..1814996_POSITIVE