Origin IGS: actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattttaatcaaatgaaaaaaaacaaagcggtaatgaaaattgccgctttttctttttgagaaatatgacagtcaaaatcttacagatcaaaacctgataacagtattttctcagtctaatttttgcgtattaatacaatacgggattgcgtagataaagtattatcaaaaaactaataattttatgaaattaaataattttttctattgactattaaagaatccggagtaaattagtctccaaaattaaccaaaactaggtaatttatccggtcaaaggttatcttaagtattaaccctaagaaaaaggaaaacgagt Mask Tandem Repeat Region ================================================ actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta Find is-nt database================================================ Query_seq: AA02808:AA02810|AA02808:AA02810:conserved hypothetical protein (possible serine hydroxymethyltransferase):glycine hydroxymethyltransferase; serine hydroxymethyltransferase:->->:1978005..1978324 320 actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02808:AA02810|AA02808:AA02810:conserved hypothetical protein (possible serine hydroxymethyltransferase):glycine hydroxymethyltransferase; serine hydroxymethyltransferase:->->:1978005..1978324 320 actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02808:AA02810|AA02808:AA02810:conserved hypothetical protein (possible serine hydroxymethyltransferase):glycine hydroxymethyltransferase; serine hydroxymethyltransferase:->->:1978005..1978324 320 actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 199 End: 312 ...................................................................................................................................................................................................... M R L R K Y C Y Q V L I C K I L T V I F L K K K K R Q F S L P L C F F S F D ........ Protein_Len: 37 Strand: - Start: 169 End: 279 ........................................................................................................................................................................ A I G Y Q I L V C F N S Q S F V T I L N Q D T L N Q S D Y K E F L F L P M ......................................... actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta 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================================================ actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -5.6 Tail_Score: -6.02546 Start: 269 End: 296 Full_Region: TATTTCTCAAAAAGA AAAAGCGGCAAT TTTC ATTACCGCTTTG TTTTTTTTCATTTGA ............................................................................................................................................................................................................................................................................AAAAGCGGCAATTTTCATTACCGCTTTG........................ TransTerm Strand: + Conf: 86 HP_score: -6.4 Tail_Score: -5.36018 Start: 273 End: 292 Full_Region: TCTCAAAAAGAAAAA GCGGCAAT TTTC ATTACCGC TTTGTTTTTTTTCAT ................................................................................................................................................................................................................................................................................GCGGCAATTTTCATTACCGC............................ Find igs database================================================ Query_seq: AA02808:AA02810|AA02808:AA02810:conserved hypothetical protein (possible serine hydroxymethyltransferase):glycine hydroxymethyltransferase; serine hydroxymethyltransferase:->->:1978005..1978324 320 actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttgttttttttcatttgattaaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 296 Len: 296 Subject: aact_AA02808_AA02810|conserved hypothetical protein (possible serine hydroxymethyltransferase):glycine hydroxymethyltransferase; serine hydroxymethyltransferase|POSITIVE:POSITIVE|[1978005, 1978324]|320 HSP 1 e-value: 1.0E-167 bit: 587.0 Len: 296 Query Start:1 Query End:296 Subject Strand: POSITIVE Subject Start: 1 Subject End: 296 actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttg........................ actcgttttcctttttcttagggttaatacttaagataacctttgaccggataaattacctagttttggttaattttggagactaatttactccggattctttaatagtcaatagaaaaaattatttaatttcataaaattattagttttttgataatactttatctacgcaatcccgtattgtattaatacgcaaaaattagactgagaaaatactgttatcaggttttgatctgtaagattttgactgtcatatttctcaaaaagaaaaagcggcaattttcattaccgctttg........................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUCGUUUUCCUUUUUCUUAGGGUUAAUACUUAAGAUAACCUUUGACCGGAUAAAUUACCUAGUUUUGGUUAAUUUUGGAGACUAAUUUACUCCGGAUUCUUUAAUAGUCAAUAGAAAAAAUUAUUUAAUUUCAUAAAAUUAUUAGUUUUUUGAUAAUACUUUAUCUACGCAAUCCCGUAUUGUAUUAAUACGCAAAAAUUAGACUGAGAAAAUACUGUUAUCAGGUUUUGAUCUGUAAGAUUUUGACUGUCAUAUUUCUCAAAAAGAAAAAGCGGCAAUUUUCAUUACCGCUUUG ...............(((((((.......)))))))..........((((((((((....(((((((.(.......).)))))))))))).)))))..(((((...((((.....(((((((((..((((((....)))))).)))))))))(((((....)))))..........(((((((...))))))).........))))((((((...(((....)))(((..((((.....))))..))).......))))))..))))).(((((((.(((....))).))))))). (-57.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAAGCGGUAAUGAAAAUUGCCGCUUUUUCUUUUUGAGAAAUAUGACAGUCAAAAUCUUACAGAUCAAAACCUGAUAACAGUAUUUUCUCAGUCUAAUUUUUGCGUAUUAAUACAAUACGGGAUUGCGUAGAUAAAGUAUUAUCAAAAAACUAAUAAUUUUAUGAAAUUAAAUAAUUUUUUCUAUUGACUAUUAAAGAAUCCGGAGUAAAUUAGUCUCCAAAAUUAACCAAAACUAGGUAAUUUAUCCGGUCAAAGGUUAUCUUAAGUAUUAACCCUAAGAAAAAGGAAAACGAGU .(((((((((((....)))))))))))...(((((((..(((((....(..(((((((.....((((.....))))...)).)))))..).(((((....((.((((((.....)))))).)).....)))))...))))).))))))).....((((((....)))))).....((((((((.((((((............((((.........)))).((((((.((.......))))))))....)))))).(((((..........)))))...)))))))).......... (-56.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 110 62 222 171 aact:AA02525|5end_conserved_hypothetical_protein_1754035..1754265_POSITIVE 286 254 214 172 125 aact:AA02062|5end_conserved_hypothetical_protein_(probable_membrane_protein)_1403427..1403657_POSITIVE 253 49 3 135 88 aact:AA01140|5end_anaerobic_dimethyl_sulfoxide_reductase,_chain_C_781610..781840_POSITIVE 242 277 244 112 81 aact:AA02715|5end_paraquat-inducible_protein_pqiB_homolog_1897053..1897283_POSITIVE 238 83 41 58 18 aact:AA00618|5end_molybdopterin_biosynthesis_protein_422984..423214_POSITIVE 231 51 11 182 136 aact:AA00981|5end_carboxylesterase_685245..685475_POSITIVE 229 276 233 149 103 aact:AA01014|5end_UTP-glucose-1-phosphate_uridylyltransferase_709469..709699_POSITIVE 225 252 214 168 130 aact:AA01620|5end_hypothetical_protein_1095513..1095743_POSITIVE 224 261 222 112 67 aact:AA01715|5end_conserved_hypothetical_protein_1160480..1160710_POSITIVE 224 70 26 207 162 aact:AA01446|5end_conserved_hypothetical_protein_970151..970381_POSITIVE 224 275 236 224 184 aact:AA00329|5end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_222737..222967_POSITIVE 223 284 267 67 50 aact:AA02955|5end_trigger_factor_2067022..2067252_POSITIVE 223 248 204 105 58 aact:AA00048|5end_conserved_hypothetical_protein_38853..39083_POSITIVE 222 49 13 177 138 aact:AA01824|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1227705..1227935_POSITIVE 222 90 44 98 57 aact:AA00037|5end_conserved_hypothetical_protein_29170..29400_POSITIVE 221 96 55 148 98 aact:AA02747|5end_ribose-phosphate_pyrophosphokinase;_phosphoribosylpyrophosphate_synthase_1924324..1924554_POSITIVE 220 210 165 72 24 aact:AA00479|5end_mannose-specific_phosphotransferase_system_IIC_333475..333705_POSITIVE 219 70 26 77 18 aact:AA01448|5end_hypothetical_protein_970208..970438_POSITIVE 218 205 168 184 144 aact:AA01982|5end_maltodextrin_phosphorylase_1339387..1339617_POSITIVE 217 259 224 100 62 aact:AA02375|5end_D-3-phosphoglycerate_dehydrogenase_1626514..1626744_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 49 3 130 83 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 242 277 244 146 115 aact:AA02714|3end_paraquat-inducible_protein_PqiA_homolog_1897167..1897317_POSITIVE 237 251 214 149 108 aact:AA02060|3end_cardiolipin_synthase_1403490..1403640_POSITIVE 229 276 233 70 24 aact:AA01013|3end_phosphomannomutase_709470..709620_POSITIVE 224 261 222 54 9 aact:AA01711|3end_conserved_hypothetical_protein_1160502..1160652_POSITIVE 224 70 26 83 38 aact:AA01445|3end_hypothetical_protein_970107..970257_POSITIVE 224 275 236 89 49 aact:AA00327|3end_conserved_hypothetical_protein_222682..222832_POSITIVE 222 49 13 139 100 aact:AA01823|3end_hypothetical_protein_1227747..1227897_POSITIVE 222 49 13 63 24 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 222 50 3 137 101 aact:AA01199|3end_conserved_hypothetical_protein_822486..822636_POSITIVE 222 90 44 102 61 aact:AA00036|3end_transposase_29254..29404_POSITIVE 220 210 165 51 3 aact:AA00478|3end_mannose-specific_phosphotransferase_element_333534..333684_POSITIVE 219 70 26 115 56 aact:AA01446|3end_conserved_hypothetical_protein_970326..970476_POSITIVE 218 205 168 71 31 aact:AA01981|3end_4-alpha-glucanotransferase_1339354..1339504_POSITIVE 218 50 2 122 67 aact:AA01690|3end_penicillin-binding_protein_1C_1149142..1149292_POSITIVE 217 259 224 78 40 aact:AA02374|3end_ribose_5-phosphate_isomerase_A_1626572..1626722_POSITIVE 217 218 175 69 26 aact:AA02020|3end_conserved_hypothetical_protein_(possible_tetrapyrrole_methylase_family_protein)_1374742..1374892_POSITIVE 216 290 243 123 84 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE 215 70 21 132 79 aact:AA02920|3end_hypothetical_protein_2045749..2045899_POSITIVE 215 50 10 54 18 aact:AA01656|3end_maltose/maltodextrin_transport_ATP-binding_protein_1122735..1122885_POSITIVE