Origin IGS: attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcggttctgtcgttatttatatacggatagccgtacaataattatatctttgtgacatacaaagatagctttcttttaccggttaagcctcaattagaat Mask Tandem Repeat Region ================================================ attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Find is-nt database================================================ Query_seq: PG0345:PG0346|PG0345:PG0346:hypothetical protein:GTP-binding protein:<-->:380699..380798 100 attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0345:PG0346|PG0345:PG0346:hypothetical protein:GTP-binding protein:<-->:380699..380798 100 attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0345:PG0346|PG0345:PG0346:hypothetical protein:GTP-binding protein:<-->:380699..380798 100 attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Predict ORF larger than 30AA ================================================ attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga 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================================================ attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0345:PG0346|PG0345:PG0346:hypothetical protein:GTP-binding protein:<-->:380699..380798 100 attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: NC_002950_PG0345_PG0346|hypothetical protein:GTP-binding protein|NEGATIVE:POSITIVE|[380699,380798]|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 attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga attctaattgaggcttaaccggtaaaagaaagctatctttgtatgtcacaaagatataattattgtacggctatccgtatataaataacgacagaaccga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUAAUUGAGGCUUAACCGGUAAAAGAAAGCUAUCUUUGUAUGUCACAAAGAUAUAAUUAUUGUACGGCUAUCCGUAUAUAAAUAACGACAGAACCGA ...................((((..........(((((((((.....))))))))).......(((((((....)))))))..............)))). (-19.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGGUUCUGUCGUUAUUUAUAUACGGAUAGCCGUACAAUAAUUAUAUCUUUGUGACAUACAAAGAUAGCUUUCUUUUACCGGUUAAGCCUCAAUUAGAAU ..((((..((((.........(((((....))))).........((((((((((...))))))))))............))))..))))........... (-18.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 812 50 1 141 92 NC_002950:PG0345|5end_hypothetical_protein_380608..380838_NEGATIVE 276 78 32 132 87 NC_002950:PG0739|5end_ribonuclease_Z_786947..787177_POSITIVE 264 73 38 158 118 NC_002950:PG1741|5end_aspartate_ammonia-lyase_1827283..1827513_NEGATIVE 249 77 31 177 116 NC_002950:PG0022|5end_sulfate_permease_family_protein_26796..27026_NEGATIVE 234 78 31 79 30 NC_002950:PG1526|5end_hypothetical_protein_1605371..1605601_NEGATIVE 234 41 11 215 189 NC_002950:PG0018|5end_hypothetical_protein_19648..19878_POSITIVE 227 90 41 190 140 NC_002950:PG0116|5end_hypothetical_protein_138469..138699_POSITIVE 226 79 32 97 42 NC_002950:PG0355|5end_hypothetical_protein_389644..389874_POSITIVE 224 45 4 74 40 NC_002950:PG0193|5end_cationic_outer_membrane_protein_OmpH_230149..230379_POSITIVE 222 49 10 135 105 NC_002950:PG0328|5end_imidazolonepropionase_363426..363656_NEGATIVE 216 54 13 57 10 NC_002950:PG1427|5end_thiol_protease/hemagglutinin_PrtT_precursor,_putative_1514396..1514626_NEGATIVE 215 49 1 84 29 NC_002950:PG1206|5end_hypothetical_protein_1284780..1285010_NEGATIVE 214 37 8 41 17 NC_002950:PG0192|5end_cationic_outer_membrane_protein_OmpH_229590..229820_POSITIVE 213 33 10 68 45 NC_002950:PG2174|5end_hypothetical_protein_2282578..2282808_NEGATIVE 213 77 31 71 29 NC_002950:PG0677|5end_saccharopine_dehydrogenase_727653..727883_POSITIVE 212 80 31 69 24 NC_002950:PG1900|5end_ribosome-associated_GTPase_2000746..2000976_NEGATIVE 210 49 11 220 175 NC_002950:PG0629|5end_inorganic_polyphosphate/ATP-NAD_kinase_683364..683594_NEGATIVE 209 75 31 225 171 NC_002950:PG1138|5end_pigmentation_and_extracellular_proteinase_regulator_1220748..1220978_NEGATIVE 208 50 10 128 82 NC_002950:PG1977|5end_hypothetical_protein_2066693..2066923_NEGATIVE 207 48 2 96 42 NC_002950:PG1732|5end_integrase/recombinase_XerD_1820171..1820401_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 78 32 100 55 NC_002950:PG0738|3end_cytidine/deoxycytidylate_deaminase_family_protein_786995..787145_POSITIVE 238 78 37 150 111 NC_002950:PG1943|3end_hypothetical_protein_2028974..2029124_NEGATIVE 228 50 1 73 28 NC_002950:PG1733|3end_hypothetical_protein_1821186..1821336_NEGATIVE 224 45 4 39 5 NC_002950:PG0192|3end_cationic_outer_membrane_protein_OmpH_230194..230344_POSITIVE 222 49 10 34 4 NC_002950:PG0329|3end_formiminotransferase-cyclodeaminase-related_protein_363527..363677_NEGATIVE 218 42 12 132 106 NC_002950:PG0377|3end_30S_ribosomal_protein_S2_407845..407995_POSITIVE 216 42 11 64 31 NC_002950:PG2106|3end_hypothetical_protein_2215457..2215607_POSITIVE 215 49 1 91 36 NC_002950:PG1207|3end_hypothetical_protein_1284773..1284923_NEGATIVE 212 47 7 148 102 NC_002950:PG1470|3end_hypothetical_protein_1548431..1548581_POSITIVE 208 50 10 98 52 NC_002950:PG1978|3end_hypothetical_protein_2066723..2066873_NEGATIVE 205 79 32 145 106 NC_002950:PG2141|3end_3-oxoacyl-(acyl_carrier_protein)_synthase_2247586..2247736_POSITIVE 201 54 11 105 54 NC_002950:PG2046|3end_hypothetical_protein_2145793..2145943_POSITIVE 201 78 32 51 3 NC_002950:PG1812|3end_2-oxoglutarate_ferredoxin_oxidoreductase_1907046..1907196_NEGATIVE 201 54 12 133 88 NC_002950:PG1483|3end_conjugative_transposon_protein_TraE_1558783..1558933_NEGATIVE 200 48 6 93 57 NC_002950:PG1816|3end_NAD(P)H_dehydrogenase,_quinone_family,_putative_1911430..1911580_NEGATIVE 200 38 10 130 104 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE 199 78 31 82 34 NC_002950:PG2063|3end_hypothetical_protein_2160390..2160540_NEGATIVE 199 99 67 49 23 NC_002950:PG1946|3end_ABC_3_transporter_family_protein_2033019..2033169_POSITIVE 197 50 9 95 46 NC_002950:PG1573|3end_transcriptional_regulator,_Crp_family_1651317..1651467_NEGATIVE 197 79 32 61 19 NC_002950:PG1572|3end_hypothetical_protein_1650446..1650596_NEGATIVE