Origin IGS: tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagaagcaagtttgtgttttgggttacccaaaacctccccgatgcccatctatcagggcgaaacaatcccgatggtctcatcaataaaacaaaagaaaca Mask Tandem Repeat Region ================================================ tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Find is-nt database================================================ Query_seq: PG0869:PG0870|PG0869:PG0870:mobilization protein:hypothetical protein:<-<-:932294..932393 100 tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0869:PG0870|PG0869:PG0870:mobilization protein:hypothetical protein:<-<-:932294..932393 100 tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0869:PG0870|PG0869:PG0870:mobilization protein:hypothetical protein:<-<-:932294..932393 100 tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Predict ORF larger than 30AA ================================================ tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta 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================================================ tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0869:PG0870|PG0869:PG0870:mobilization protein:hypothetical protein:<-<-:932294..932393 100 tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: NC_002950_PG0869_PG0870|mobilization protein:hypothetical protein|NEGATIVE:NEGATIVE|[932294,932393]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta tgtttcttttgttttattgatgagaccatcgggattgtttcgccctgatagatgggcatcggggaggttttgggtaacccaaaacacaaacttgcttcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUCUUUUGUUUUAUUGAUGAGACCAUCGGGAUUGUUUCGCCCUGAUAGAUGGGCAUCGGGGAGGUUUUGGGUAACCCAAAACACAAACUUGCUUCUA ..........((((..((((((...((((((((.........))).....))))).))))))....((((((((...))))))))..))))......... (-24.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAGCAAGUUUGUGUUUUGGGUUACCCAAAACCUCCCCGAUGCCCAUCUAUCAGGGCGAAACAAUCCCGAUGGUCUCAUCAAUAAAACAAAAGAAACA .........((((..((((((((...))))))))......((((.....(((((.(((.........))))))))...)))).............)))). (-21.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1045 80 31 171 122 NC_002950:PG0869|5end_mobilization_protein_932203..932433_NEGATIVE 504 68 21 144 91 NC_002950:PG1020|5end_hypothetical_protein_1080568..1080798_POSITIVE 409 76 37 81 33 NC_002950:PG0432|5end_NOL1/NOP2/sun_family_protein_470679..470909_NEGATIVE 406 67 23 217 174 NC_002950:PG1853|5end_DNA_polymerase_III,_beta_subunit_1953119..1953349_NEGATIVE 376 67 26 53 11 NC_002950:PG1977|5end_hypothetical_protein_2066693..2066923_NEGATIVE 364 69 24 69 23 NC_002950:PG0414|5end_hypothetical_protein_453652..453882_NEGATIVE 363 66 25 62 17 NC_002950:PG1249|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase,_putative_1327161..1327391_NEGATIVE 360 65 30 221 190 NC_002950:PG2072|5end_UvrD/REP_helicase_domain_protein_2167369..2167599_POSITIVE 356 76 33 53 5 NC_002950:PG1899|5end_TonB-dependent_receptor,_putative_1999724..1999954_NEGATIVE 354 61 22 229 193 NC_002950:PG1754|5end_hypothetical_protein_1839679..1839909_POSITIVE 352 70 26 84 36 NC_002950:PG1675|5end_hypothetical_protein_1760182..1760412_POSITIVE 348 70 26 137 97 NC_002950:PG0605|5end_hypothetical_protein_662406..662636_NEGATIVE 348 78 31 212 150 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 348 75 33 47 4 NC_002950:PG0365|5end_3'-5'_exonuclease_domain_protein_400178..400408_NEGATIVE 335 70 28 81 32 NC_002950:PG1778|5end_hypothetical_protein_1867054..1867284_POSITIVE 331 78 34 89 38 NC_002950:PG0684|5end_ABC_transporter,_permease_protein,_putative_737648..737878_POSITIVE 325 79 33 166 99 NC_002950:PG1626|5end_hypothetical_protein_1708742..1708972_POSITIVE 325 47 1 177 124 NC_002950:PG0532|5end_hypothetical_protein_582148..582378_NEGATIVE 324 62 26 125 88 NC_002950:PG0897|5end_alpha-amylase_family_protein_962472..962702_NEGATIVE 324 65 26 228 190 NC_002950:PG0635|5end_ribosomal_protein_L11_methyltransferase_687773..688003_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 76 37 77 29 NC_002950:PG0433|3end_tetrapyrrole_methylase_family_protein_470683..470833_NEGATIVE 374 80 31 130 87 NC_002950:PG1677|3end_phosphoglycerate_kinase_1763678..1763828_POSITIVE 348 70 26 92 52 NC_002950:PG0606|3end_hypothetical_protein_662451..662601_NEGATIVE 340 63 22 74 26 NC_002950:PG1117|3end_MATE_efflux_family_protein_1191541..1191691_POSITIVE 335 70 28 52 3 NC_002950:PG1777|3end_hypothetical_protein_1867105..1867255_POSITIVE 331 78 34 62 11 NC_002950:PG0683|3end_ABC_transporter,_permease_protein,_putative_737701..737851_POSITIVE 328 67 29 126 81 NC_002950:PG1711|3end_alpha-1,2-mannosidase_family_protein_1796652..1796802_NEGATIVE 327 69 24 71 7 NC_002950:PG0723|3end_hypothetical_protein_775355..775505_POSITIVE 324 62 26 38 1 NC_002950:PG0898|3end_hypothetical_protein_962559..962709_NEGATIVE 322 79 32 84 26 NC_002950:PG2213|3end_nitrite_reductase-related_protein_2324848..2324998_NEGATIVE 321 80 31 147 98 NC_002950:PG1242|3end_replicative_DNA_helicase_1319101..1319251_POSITIVE 319 69 24 53 5 NC_002950:PG1966|3end_hypothetical_protein_2056118..2056268_NEGATIVE 315 68 21 142 86 NC_002950:PG0877|3end_hypothetical_protein_940838..940988_NEGATIVE 314 69 28 135 90 NC_002950:PG1715|3end_hypothetical_protein_1803393..1803543_NEGATIVE 313 82 41 55 8 NC_002950:PG1306|3end_metallo-beta-lactamase_family_protein_1386543..1386693_NEGATIVE 312 83 42 68 7 NC_002950:PG1625|3end_hypothetical_protein_1708718..1708868_POSITIVE 311 67 28 67 29 NC_002950:PG2047|3end_helicase,_putative_2145758..2145908_NEGATIVE 307 81 41 37 5 NC_002950:PG0639|3end_signal_peptide_peptidase_SppA,_67K_type_691213..691363_NEGATIVE 306 66 21 144 92 NC_002950:PG1807|3end_v-type_ATPase,_subunit_K_1902625..1902775_POSITIVE 305 74 38 75 40 NC_002950:PG1114|3end_aspartate_1-decarboxylase_precursor_1187473..1187623_POSITIVE