Origin IGS: gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttagttgctcttatcttgacaaatcattttgctatttagattacccttagtacgatcccattaaaataacaatcaaaatatcgtaccttagcattttctaaacaacgcaaatataaagaatttatatttc Mask Tandem Repeat Region ================================================ gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Find is-nt database================================================ Query_seq: PG0135:PG0136|PG0135:PG0136:dimethyladenosine transferase:hypothetical protein:<-->:158034..158163 130 gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0135:PG0136|PG0135:PG0136:dimethyladenosine transferase:hypothetical protein:<-->:158034..158163 130 gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0135:PG0136|PG0135:PG0136:dimethyladenosine transferase:hypothetical protein:<-->:158034..158163 130 gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Predict ORF larger than 30AA ================================================ gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa 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================================================ gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0135:PG0136|PG0135:PG0136:dimethyladenosine transferase:hypothetical protein:<-->:158034..158163 130 gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: NC_002950_PG0135_PG0136|dimethyladenosine transferase:hypothetical protein|NEGATIVE:POSITIVE|[158034,158163]|130 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa gaaatataaattctttatatttgcgttgtttagaaaatgctaaggtacgatattttgattgttattttaatgggatcgtactaagggtaatctaaatagcaaaatgatttgtcaagataagagcaactaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAUAUAAAUUCUUUAUAUUUGCGUUGUUUAGAAAAUGCUAAGGUACGAUAUUUUGAUUGUUAUUUUAAUGGGAUCGUACUAAGGGUAAUCUAAAUAGCAAAAUGAUUUGUCAAGAUAAGAGCAACUAA .((((((((.....))))))))..((((((((((...((((..((((((((...((((........))))....))))))))...)))).))))))))))....(((....)))................ (-27.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGUUGCUCUUAUCUUGACAAAUCAUUUUGCUAUUUAGAUUACCCUUAGUACGAUCCCAUUAAAAUAACAAUCAAAAUAUCGUACCUUAGCAUUUUCUAAACAACGCAAAUAUAAAGAAUUUAUAUUUC ...((((............((((....))))...((((((..(..((..(((((((.......................)))))))...))..)..))))))))))..((((((((.....)))))))). (-14.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 791 120 71 211 162 NC_002950:PG0135|5end_dimethyladenosine_transferase_157943..158173_NEGATIVE 267 89 48 166 132 NC_002950:PG0853|5end_DNA-binding_protein,_histone-like_family_914384..914614_POSITIVE 240 70 21 82 34 NC_002950:PG0851|5end_hypothetical_protein_912732..912962_NEGATIVE 237 100 53 170 116 NC_002950:PG2143|5end_GTP-binding_protein_EngA_2248547..2248777_POSITIVE 232 80 37 144 90 NC_002950:PG1060|5end_carboxyl-terminal_protease_1126658..1126888_POSITIVE 226 88 49 226 182 NC_002950:PG0650|5end_hypothetical_protein_702964..703194_NEGATIVE 223 114 74 36 2 NC_002950:PG0203|5end_hypothetical_protein_240211..240441_NEGATIVE 219 89 43 128 84 NC_002950:PG2156|5end_conserved_hypothetical_protein_TIGR00046_2262645..2262875_NEGATIVE 216 108 61 73 24 NC_002950:PG1593|5end_shikimate_kinase_1671503..1671733_POSITIVE 216 52 12 177 130 NC_002950:PG1327|5end_aminotransferase,_putative_1406580..1406810_NEGATIVE 214 89 48 166 132 NC_002950:PG2152|5end_DNA-binding_protein,_histone-like_family_2259750..2259980_POSITIVE 213 50 14 130 87 NC_002950:PG1136|5end_hypothetical_protein_1218327..1218557_NEGATIVE 207 119 71 209 160 NC_002950:PG2077|5end_hypothetical_protein_2177391..2177621_NEGATIVE 205 87 43 212 154 NC_002950:PG1696|5end_type_II_DNA_modification_methyltransferase,_putative_1779973..1780203_POSITIVE 205 61 21 136 101 NC_002950:PG1604|5end_immunoreactive_84_kDa_antigen_PG93_1682737..1682967_POSITIVE 205 125 83 166 119 NC_002950:PG1007|5end_transcriptional_regulator,_GntR_family_1066889..1067119_NEGATIVE 203 113 81 133 104 NC_002950:PG1212|5end_TPR_domain_protein_1291392..1291622_POSITIVE 202 89 57 65 28 NC_002950:PG0733|5end_riboflavin_synthase_subunit_alpha_783174..783404_POSITIVE 198 54 11 213 164 NC_002950:PG1585|5end_batD_protein_1662255..1662485_POSITIVE 198 89 42 190 143 NC_002950:PG1036|5end_excinuclease_ABC,_A_subunit_1098436..1098666_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 237 100 53 107 53 NC_002950:PG2142|3end_GTP-binding_protein_Era_2248564..2248714_POSITIVE 226 88 49 119 75 NC_002950:PG0651|3end_HDIG_domain_protein_703071..703221_NEGATIVE 216 52 12 134 87 NC_002950:PG1328|3end_CoA_ligase_family_protein_1406623..1406773_NEGATIVE 215 120 83 151 121 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 205 61 21 148 113 NC_002950:PG1603|3end_HAM1_protein_1682829..1682979_POSITIVE 203 113 81 120 91 NC_002950:PG1211|3end_hexapeptide_transferase_family_protein_1291459..1291609_POSITIVE 200 89 43 89 40 NC_002950:PG1184|3end_alginate_O-acetyltransferase,_putative_1265335..1265485_NEGATIVE 198 89 42 119 72 NC_002950:PG1035|3end_hypothetical_protein_1098445..1098595_POSITIVE 198 93 70 37 5 NC_002950:PG1025|3end_hypothetical_protein_1088309..1088459_POSITIVE 198 90 48 75 18 NC_002950:PG0915|3end_hypothetical_protein_977057..977207_POSITIVE 197 127 84 119 77 NC_002950:PG1408|3end_heavy_metal_efflux_pump,_CzcD_family_1492906..1493056_POSITIVE 196 63 22 115 73 NC_002950:PG1145|3end_long-chain-fatty-acid--CoA_ligase,_putative_1228482..1228632_NEGATIVE 196 93 51 140 94 NC_002950:PG0119|3end_glycosyl_transferase,_WecB/TagA/CpsF_family_143078..143228_POSITIVE 195 88 44 142 100 NC_002950:PG0710|3end_peptidyl-prolyl_cis-trans_isomerase,_FKBP-type_765447..765597_NEGATIVE 191 64 25 119 84 NC_002950:PG1626|3end_hypothetical_protein_1710486..1710636_POSITIVE 191 66 23 63 21 NC_002950:PG0059|3end_hypothetical_protein_71989..72139_POSITIVE 191 89 44 116 63 NC_002950:PG0052|3end_sensor_histidine_kinase_64686..64836_POSITIVE 189 115 78 72 35 NC_002950:PG1818|3end_hypothetical_protein_1913028..1913178_NEGATIVE 186 88 47 124 66 NC_002950:PG1076|3end_acyl-CoA_dehydrogenase,_short-chain_specific_1144704..1144854_POSITIVE 185 68 24 41 5 NC_002950:PG1079|3end_enoyl-CoA_hydratase/isomerase_family_protein_1147399..1147549_POSITIVE