Origin IGS: ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttccttttcgattattagttatttatcattttatttcatctgcatctttcgactacctacttccttgccatttacaatcagagaatatacagagcaaatccctgaaacacatcaccatatgacatatgccgaaagataaataa Mask Tandem Repeat Region ================================================ ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Find is-nt database================================================ Query_seq: PG1029:PG1030|PG1029:PG1030:hypothetical protein:hypothetical protein:->->:1091397..1091539 143 ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1029:PG1030|PG1029:PG1030:hypothetical protein:hypothetical protein:->->:1091397..1091539 143 ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1029:PG1030|PG1029:PG1030:hypothetical protein:hypothetical protein:->->:1091397..1091539 143 ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 25 End: 123 ........................ I T I H K L S K S Q I N E S Q L H C P L L Y D F S A S S I F H Y M .................... Protein_Len: 42 Strand: - Start: 8 End: 133 ....... R E A Y T M H H H T E P I Q E T Y E R I T F P L S T P L R F I C I F Y F S L Y S I M .......... ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa 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================================================ ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1029:PG1030|PG1029:PG1030:hypothetical protein:hypothetical protein:->->:1091397..1091539 143 ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Intra-Species Hit: Count: 1 Min: 1 Max: 143 Len: 143 Subject: NC_002950_PG1029_PG1030|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1091397,1091539]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa ttatttatctttcggcatatgtcatatggtgatgtgtttcagggatttgctctgtatattctctgattgtaaatggcaaggaagtaggtagtcgaaagatgcagatgaaataaaatgataaataactaataatcgaaaaggaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUUUAUCUUUCGGCAUAUGUCAUAUGGUGAUGUGUUUCAGGGAUUUGCUCUGUAUAUUCUCUGAUUGUAAAUGGCAAGGAAGUAGGUAGUCGAAAGAUGCAGAUGAAAUAAAAUGAUAAAUAACUAAUAAUCGAAAAGGAA ((((((((((((((((.((((((((...))))))))..(((((((..(((...)))...)))))))........................)))))))))))..)))))................................... (-27.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCCUUUUCGAUUAUUAGUUAUUUAUCAUUUUAUUUCAUCUGCAUCUUUCGACUACCUACUUCCUUGCCAUUUACAAUCAGAGAAUAUACAGAGCAAAUCCCUGAAACACAUCACCAUAUGACAUAUGCCGAAAGAUAAAUAA ...........................................((((((((..........................((((.((..............)).))))..........(((((...))))).))))))))...... (-12.04) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 55 13 69 26 NC_002950:PG1127|5end_transcriptional_regulator,_AsnC_Family_1203223..1203453_POSITIVE 320 106 62 183 134 NC_002950:PG2053|5end_dithiobiotin_synthetase_2150534..2150764_POSITIVE 312 55 11 102 53 NC_002950:PG1678|5end_hypothetical_protein_1763862..1764092_NEGATIVE 310 65 21 216 157 NC_002950:PG1475|5end_conjugative_transposon_protein_TraN_1551835..1552065_NEGATIVE 298 58 12 215 156 NC_002950:PG0574|5end_hypothetical_protein_629018..629248_POSITIVE 293 49 4 195 149 NC_002950:PG0628|5end_ABC_transporter,_ATP-binding_protein_682439..682669_NEGATIVE 291 65 21 97 48 NC_002950:PG1727|5end_yitL_protein_1816709..1816939_POSITIVE 291 53 14 215 170 NC_002950:PG1703|5end_MazG_family_protein_1790753..1790983_NEGATIVE 285 54 13 208 165 NC_002950:PG1067|5end_hypothetical_protein_1134219..1134449_POSITIVE 285 58 11 206 161 NC_002950:PG1021|5end_hypothetical_protein_1083592..1083822_NEGATIVE 284 49 8 59 15 NC_002950:PG1969|5end_hypothetical_protein_2059515..2059745_NEGATIVE 282 56 11 190 149 NC_002950:PG1999|5end_hypothetical_protein_2088821..2089051_NEGATIVE 275 88 42 65 21 NC_002950:PG1249|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase,_putative_1327161..1327391_NEGATIVE 268 54 14 203 160 NC_002950:PG1179|5end_hypothetical_protein_1261132..1261362_NEGATIVE 268 68 22 187 147 NC_002950:PG0850|5end_DNA_binding_protein,_excisionase_family,_putative_911578..911808_NEGATIVE 266 108 62 72 22 NC_002950:PG2131|5end_60_kDa_protein_2236174..2236404_POSITIVE 265 50 2 136 76 NC_002950:PG1050|5end_hypothetical_protein_1117272..1117502_POSITIVE 263 54 13 67 12 NC_002950:PG0190|5end_undecaprenyl_diphosphate_synthase_226076..226306_POSITIVE 262 96 51 120 65 NC_002950:PG1300|5end_hypothetical_protein_1379069..1379299_NEGATIVE 262 110 73 177 135 NC_002950:PG0322|5end_serine/threonine_transporter_355708..355938_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 55 11 149 95 NC_002950:PG1226|3end_peptidyl-prolyl_cis-trans_isomerase,_cyclophilin-type_1304048..1304198_POSITIVE 302 49 7 85 44 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 293 57 11 129 84 NC_002950:PG1745|3end_phosphoribulokinase_family_protein_1829435..1829585_NEGATIVE 293 49 4 136 90 NC_002950:PG0629|3end_inorganic_polyphosphate/ATP-NAD_kinase_682498..682648_NEGATIVE 291 65 21 87 38 NC_002950:PG1726|3end_PDZ_domain_protein_1816779..1816929_POSITIVE 284 49 8 90 46 NC_002950:PG1970|3end_hypothetical_protein_2059484..2059634_NEGATIVE 277 100 54 55 15 NC_002950:PG0540|3end_AcrB/AcrD/AcrF_family_protein_594852..595002_POSITIVE 276 88 42 87 40 NC_002950:PG2021|3end_hypothetical_protein_2112921..2113071_NEGATIVE 271 65 27 50 15 NC_002950:PG1324|3end_Holliday_junction_resolvase_1402862..1403012_NEGATIVE 270 49 4 150 110 NC_002950:PG2197|3end_hypothetical_protein_2303482..2303632_POSITIVE 268 54 14 125 82 NC_002950:PG1180|3end_hypothetical_protein_1261210..1261360_NEGATIVE 265 50 2 129 69 NC_002950:PG1049|3end_hypothetical_protein_1117345..1117495_POSITIVE 265 107 66 44 11 NC_002950:PG0498|3end_S-ribosylhomocysteinase_538527..538677_POSITIVE 262 103 62 151 105 NC_002950:PG2052|3end_dihydrodipicolinate_synthase_2150585..2150735_POSITIVE 262 96 51 83 28 NC_002950:PG1301|3end_hypothetical_protein_1379106..1379256_NEGATIVE 262 110 73 148 106 NC_002950:PG0321|3end_arginine/ornithine_transport_system_ATPase_355759..355909_POSITIVE 261 53 12 101 53 NC_002950:PG2079|3end_hypothetical_protein_2178890..2179040_NEGATIVE 261 55 11 86 43 NC_002950:PG0395|3end_DNA-directed_RNA_polymerase_beta'_subunit_433305..433455_POSITIVE 260 109 76 74 27 NC_002950:PG0333|3end_hypothetical_protein_368811..368961_POSITIVE 259 58 13 60 6 NC_002950:PG0932|3end_DNA_polymerase_III,_delta_prime_subunit,_putative_989833..989983_POSITIVE