Origin IGS: cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctttcacaaactagggctttttttattcgccaatttcgagtaactcagtgcatatcaataaattaatgagagacctttgaaaaaagaggaggttatcaagaatcaccctttcagtg Mask Tandem Repeat Region ================================================ cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Find is-nt database================================================ Query_seq: PG1233:PG1234|PG1233:PG1234:hypothetical protein:hypothetical protein:->->:1310136..1310251 116 cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1233:PG1234|PG1233:PG1234:hypothetical protein:hypothetical protein:->->:1310136..1310251 116 cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1233:PG1234|PG1233:PG1234:hypothetical protein:hypothetical protein:->->:1310136..1310251 116 cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Predict ORF larger than 30AA ================================================ cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag 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================================================ cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1233:PG1234|PG1233:PG1234:hypothetical protein:hypothetical protein:->->:1310136..1310251 116 cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: NC_002950_PG1233_PG1234|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1310136,1310251]|116 HSP 1 e-value: 3.0E-47 bit: 188.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaatnnnnnnngccctagtttgtgaaag cactgaaagggtgattcttgataacctcctcttttttcaaaggtctctcattaatttattgatatgcactgagttactcgaaattggcgaataaaaaaagccctagtttgtgaaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CACUGAAAGGGUGAUUCUUGAUAACCUCCUCUUUUUUCAAAGGUCUCUCAUUAAUUUAUUGAUAUGCACUGAGUUACUCGAAAUUGGCGAAUAAAAAAAGCCCUAGUUUGUGAAAG (((.((..(((.(((..((((...............))))..))).)))..(((((((.((.....)).))))))).))......(((...........))).......))).... (-17.06) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUCACAAACUAGGGCUUUUUUUAUUCGCCAAUUUCGAGUAACUCAGUGCAUAUCAAUAAAUUAAUGAGAGACCUUUGAAAAAAGAGGAGGUUAUCAAGAAUCACCCUUUCAGUG ....(((......(.(((....(((((((.......)))))))...))).)...............((((((.(((((......))))).((((......))))...))))))))) (-18.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 53 17 148 111 NC_002950:PG1549|5end_hypothetical_protein_1627947..1628177_NEGATIVE 261 69 24 211 165 NC_002950:PG2003|5end_deoxyguanosinetriphosphate_triphosphohydrolase_2092991..2093221_NEGATIVE 253 90 42 78 26 NC_002950:PG1596|5end_isoleucyl-tRNA_synthetase,_putative_1674543..1674773_POSITIVE 242 48 2 203 159 NC_002950:PG0365|5end_3'-5'_exonuclease_domain_protein_400178..400408_NEGATIVE 239 50 2 50 5 NC_002950:PG1233|5end_hypothetical_protein_1309885..1310115_POSITIVE 238 48 11 40 1 NC_002950:PG1591|5end_hypothetical_protein_1667917..1668147_POSITIVE 236 48 3 196 137 NC_002950:PG1419|5end_ISPg5,_transposase_Orf1_1504997..1505227_POSITIVE 233 48 8 193 144 NC_002950:PG0282|5end_ABC_transporter,_ATP-binding_protein_316915..317145_NEGATIVE 232 46 8 78 38 NC_002950:PG0062|5end_TPR_domain_protein_73688..73918_POSITIVE 231 43 3 70 22 NC_002950:PG2052|5end_dihydrodipicolinate_synthase_2149636..2149866_POSITIVE 230 89 43 176 135 NC_002950:PG1276|5end_DNA-binding_protein,_histone-like_family_1352945..1353175_POSITIVE 230 89 43 176 135 NC_002950:PG0566|5end_DNA-binding_protein,_histone-like_family_623441..623671_NEGATIVE 229 46 2 227 194 NC_002950:PG0415|5end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_455096..455326_NEGATIVE 228 89 42 198 143 NC_002950:PG0788|5end_hypothetical_protein_840676..840906_NEGATIVE 225 88 41 116 78 NC_002950:PG2212|5end_hypothetical_protein_2324767..2324997_NEGATIVE 222 90 59 166 128 NC_002950:PG1133|5end_hypothetical_protein_1213571..1213801_POSITIVE 222 110 63 165 121 NC_002950:PG0811|5end_Holliday_junction_DNA_helicase_motor_protein_873209..873439_NEGATIVE 220 49 9 74 39 NC_002950:PG1997|5end_hypothetical_protein_2086831..2087061_POSITIVE 220 46 3 231 199 NC_002950:PG1387|5end_hypothetical_protein_1470058..1470288_NEGATIVE 219 50 8 203 146 NC_002950:PG1343|5end_lipoate-protein_ligase_B_1423628..1423858_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 267 50 7 143 100 NC_002950:PG1509|3end_HAD-superfamily_hydrolase,_subfamily_IA,_variant_1_family_protein_1587439..1587589_POSITIVE 261 69 24 67 21 NC_002950:PG2004|3end_hypothetical_protein_2093135..2093285_NEGATIVE 249 39 4 116 83 NC_002950:PG0097|3end_hypothetical_protein_115056..115206_NEGATIVE 247 48 15 37 4 NC_002950:PG1831|3end_ATP-dependent_DNA_helicase_RecQ_1923455..1923605_NEGATIVE 242 48 2 126 82 NC_002950:PG0366|3end_hypothetical_protein_400255..400405_NEGATIVE 236 48 3 71 12 NC_002950:PG1418|3end_DNA_polymerase_III,_gamma_and_tau_subunits_1504952..1505102_POSITIVE 233 48 8 113 64 NC_002950:PG0283|3end_efflux_transporter,_MFP_component,_RND_family_316995..317145_NEGATIVE 232 49 2 114 66 NC_002950:PG0114|3end_hypothetical_protein_137998..138148_POSITIVE 232 46 8 73 33 NC_002950:PG0061|3end_yngK_protein_73763..73913_POSITIVE 230 49 9 44 2 NC_002950:PG1676|3end_phosphoenolpyruvate_carboxykinase_1760489..1760639_NEGATIVE 227 43 15 148 125 NC_002950:PG1459|3end_hypothetical_protein_1539632..1539782_NEGATIVE 226 47 15 75 45 NC_002950:PG1449|3end_hypothetical_protein_1533582..1533732_NEGATIVE 226 47 15 92 62 NC_002950:PG1196|3end_hypothetical_protein_1275359..1275509_POSITIVE 226 47 15 75 45 NC_002950:PG0824|3end_hypothetical_protein_881930..882080_POSITIVE 226 110 77 121 86 NC_002950:PG0403|3end_hypothetical_protein_439453..439603_NEGATIVE 222 90 59 137 99 NC_002950:PG1132|3end_valyl-tRNA_synthetase_1213622..1213772_POSITIVE 218 105 63 64 18 NC_002950:PG2044|3end_hypothetical_protein_2144165..2144315_POSITIVE 216 50 2 76 15 NC_002950:PG2037|3end_hypothetical_protein_2137591..2137741_NEGATIVE 216 45 10 60 35 NC_002950:PG0081|3end_hypothetical_protein_96062..96212_POSITIVE 215 43 4 113 69 NC_002950:PG2158|3end_hypothetical_protein_2264473..2264623_POSITIVE