Origin IGS: actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atgcttgtgaaacaaacaattatatgcaaaaccctacgatagatttcgacaaagaaacgcctctgttttttagtcctatgggcgatcctctttaccacttgaaagaaagt Mask Tandem Repeat Region ================================================ actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Find is-nt database================================================ Query_seq: PG0645:PG0646|PG0645:PG0646:hypothetical protein:iron compound ABC transporter, ATP-binding protein:<-<-:698050..698159 110 actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0645:PG0646|PG0645:PG0646:hypothetical protein:iron compound ABC transporter, ATP-binding protein:<-<-:698050..698159 110 actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0645:PG0646|PG0645:PG0646:hypothetical protein:iron compound ABC transporter, ATP-binding protein:<-<-:698050..698159 110 actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 13 End: 108 ............ M V K R I A H R T K K Q R R F F V E I Y R R V L H I I V C F T S .. actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat 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================================================ actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0645:PG0646|PG0645:PG0646:hypothetical protein:iron compound ABC transporter, ATP-binding protein:<-<-:698050..698159 110 actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Intra-Species Hit: Count: 1 Min: 1 Max: 110 Len: 110 Subject: NC_002950_PG0645_PG0646|hypothetical protein:iron compound ABC transporter, ATP-binding protein|NEGATIVE:NEGATIVE|[698050,698159]|110 HSP 1 e-value: 3.0E-56 bit: 218.0 Len: 110 Query Start:1 Query End:110 Subject Strand: POSITIVE Subject Start: 1 Subject End: 110 actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat actttctttcaagtggtaaagaggatcgcccataggactaaaaaacagaggcgtttctttgtcgaaatctatcgtagggttttgcatataattgtttgtttcacaagcat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUCUUUCAAGUGGUAAAGAGGAUCGCCCAUAGGACUAAAAAACAGAGGCGUUUCUUUGUCGAAAUCUAUCGUAGGGUUUUGCAUAUAAUUGUUUGUUUCACAAGCAU ............(((....((((((.(((((................).)))).))))))..((((((((......))))))))))).....((((((.....)))))). (-19.59) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGCUUGUGAAACAAACAAUUAUAUGCAAAACCCUACGAUAGAUUUCGACAAAGAAACGCCUCUGUUUUUUAGUCCUAUGGGCGAUCCUCUUUACCACUUGAAAGAAAGU .(((.(((((.........))))).)))...(((....((((.....(((.((((((((....)))))))).))))))))))......(((((........))))).... (-15.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 915 70 21 161 112 NC_002950:PG0645|5end_hypothetical_protein_697959..698189_NEGATIVE 321 65 23 104 56 NC_002950:PG1388|5end_hypothetical_protein_1470889..1471119_NEGATIVE 306 84 47 216 180 NC_002950:PG1289|5end_GDP-fucose_synthetase_1367041..1367271_POSITIVE 302 60 19 208 160 NC_002950:PG1694|5end_hypothetical_protein_1779010..1779240_NEGATIVE 298 56 12 149 95 NC_002950:PG0471|5end_hypothetical_protein_512288..512518_POSITIVE 292 64 28 157 117 NC_002950:PG0336|5end_hypothetical_protein_371292..371522_NEGATIVE 291 54 12 62 22 NC_002950:PG1178|5end_hypothetical_protein_1260337..1260567_NEGATIVE 286 87 49 74 32 NC_002950:PG2127|5end_hypothetical_protein_2233552..2233782_NEGATIVE 284 84 45 221 171 NC_002950:PG1523|5end_naphthoate_synthase_1600988..1601218_NEGATIVE 274 70 23 221 158 NC_002950:PG0309|5end_thiamine_biosynthesis_lipoprotein_ApbE_345023..345253_NEGATIVE 274 84 48 145 109 NC_002950:PG0074|5end_peptide_chain_release_factor_1_89172..89402_NEGATIVE 265 79 33 117 54 NC_002950:PG1732|5end_integrase/recombinase_XerD_1820171..1820401_POSITIVE 265 80 35 182 132 NC_002950:PG0329|5end_formiminotransferase-cyclodeaminase-related_protein_364429..364659_NEGATIVE 264 85 46 202 154 NC_002950:PG0053|5end_hypothetical_protein_65086..65316_NEGATIVE 262 86 46 62 26 NC_002950:PG1258|5end_DNA-binding_protein_HU_1334862..1335092_NEGATIVE 261 107 62 107 63 NC_002950:PG0223|5end_exonuclease_257610..257840_NEGATIVE 260 65 22 102 44 NC_002950:PG0480|5end_precorrin-2_C20-methyltransferase,_putative_521319..521549_NEGATIVE 258 57 11 229 185 NC_002950:PG1052|5end_transcriptional_regulator,_putative_1119690..1119920_POSITIVE 255 80 34 226 181 NC_002950:PG0118|5end_glycosyl_transferase,_group_2_family_protein_141209..141439_POSITIVE 254 64 21 125 78 NC_002950:PG0470|5end_hypothetical_protein_511883..512113_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 65 23 123 75 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 311 85 47 143 93 NC_002950:PG2146|3end_hypothetical_protein_2254650..2254800_POSITIVE 303 79 31 145 102 NC_002950:PG2063|3end_hypothetical_protein_2160390..2160540_NEGATIVE 292 64 28 72 32 NC_002950:PG0337|3end_hypothetical_protein_371377..371527_NEGATIVE 291 54 12 58 18 NC_002950:PG1179|3end_hypothetical_protein_1260341..1260491_NEGATIVE 281 86 46 127 83 NC_002950:PG1229|3end_hypothetical_protein_1305559..1305709_NEGATIVE 274 84 48 120 84 NC_002950:PG0075|3end_phosphoribosylformylglycinamidine_cyclo-ligase,_putative_89197..89347_NEGATIVE 265 80 35 133 83 NC_002950:PG0330|3end_DNA-binding_protein,_histone-like_family_364478..364628_NEGATIVE 261 86 50 128 95 NC_002950:PG0300|3end_TPR_domain_protein_337942..338092_POSITIVE 261 107 62 103 59 NC_002950:PG0224|3end_hypothetical_protein_257614..257764_NEGATIVE 258 81 46 134 92 NC_002950:PG1497|3end_DNA-binding_protein,_histone-like_family_1574635..1574785_POSITIVE 257 54 11 129 72 NC_002950:PG1711|3end_alpha-1,2-mannosidase_family_protein_1796652..1796802_NEGATIVE 254 98 51 148 94 NC_002950:PG0163|3end_diphosphate--fructose-6-phosphate_1-phosphotransferase_185236..185386_NEGATIVE 253 58 18 72 35 NC_002950:PG2099|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2206649..2206799_NEGATIVE 252 80 36 47 12 NC_002950:PG1125|3end_hypothetical_protein_1201071..1201221_NEGATIVE 250 60 11 52 3 NC_002950:PG1134|3end_thioredoxin_reductase_1215371..1215521_POSITIVE 248 80 31 103 61 NC_002950:PG1475|3end_conjugative_transposon_protein_TraN_1550810..1550960_NEGATIVE 244 79 46 149 109 NC_002950:PG1225|3end_ABC_transporter,_ATP-binding_protein_1303336..1303486_POSITIVE 243 84 47 145 103 NC_002950:PG1916|3end_translation_initiation_factor_IF-1_2013484..2013634_NEGATIVE 243 80 48 89 50 NC_002950:PG1321|3end_formate--tetrahydrofolate_ligase_1399656..1399806_NEGATIVE