Origin IGS: aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tattaagataccaagcccgtaaaacacaaagccaaaataggaaattctctgaagacgcttgtgtctaagagaagtttatctttttggcacagtgtttagggcgggttcagtttagaaatttaaccgaaccatccttt Mask Tandem Repeat Region ================================================ aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Find is-nt database================================================ Query_seq: SMT_1261:SMT_1262|SMT_1261:SMT_1262:MutT/NUDIX family protein:ribosomal protein L11 methyltransferase:->->:1227155..1227291 137 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1261:SMT_1262|SMT_1261:SMT_1262:MutT/NUDIX family protein:ribosomal protein L11 methyltransferase:->->:1227155..1227291 137 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1261:SMT_1262|SMT_1261:SMT_1262:MutT/NUDIX family protein:ribosomal protein L11 methyltransferase:->->:1227155..1227291 137 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 46 End: 132 ............................................. M C Q K D K L L L D T S V F R E F P I L A L C F T G L V S * ..... aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata 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================================================ aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 48 HP_score: -3.2 Tail_Score: -3.34894 Start: 46 End: 79 Full_Region: attctctgaagacgc ttgtgtctaagaga agttta tctttttggcacag tgtttagggcgggtt .............................................ttgtgtctaagagaagtttatctttttggcacag.......................................................... TransTerm Strand: - Conf: 47 HP_score: -4.5 Tail_Score: -2.60615 Start: 47 End: 78 Full_Region: ttctctgaagacgct tgtgtctaagaga agttta tctttttggcaca gtgtttagggcgggt ..............................................tgtgtctaagagaagtttatctttttggcaca........................................................... Find igs database================================================ Query_seq: SMT_1261:SMT_1262|SMT_1261:SMT_1262:MutT/NUDIX family protein:ribosomal protein L11 methyltransferase:->->:1227155..1227291 137 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: smit_SMT_1261_SMT_1262|MutT/NUDIX family protein:ribosomal protein L11 methyltransferase|POSITIVE:POSITIVE|[1227155, 1227291]|137 HSP 1 e-value: 3.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata Inter-species Hit: Count: 4 Min: 1 Max: 137 Len: 137 Subject: NC_008533_SPD_1573_SPD_1574|ribosomal protein L11 methyltransferase:MutT/nudix family protein|NEGATIVE:NEGATIVE|[1592462,1592598]|137 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 137 Query Start:1 Query End:137 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 137 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtatcttaata aaaggatggttcagttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggttttgtgttttacgggcttggtatcttaata Subject: NC_003028_SP_1782_SP_1783|ribosomal protein L11 methyltransferase:MutT/nudix family protein|NEGATIVE:NEGATIVE|[1701271,1701405]|135 HSP 1 e-value: 6.0E-61 bit: 234.0 Len: 130 Query Start:1 Query End:130 Subject Strand: NEGATIVE Subject Start: 6 Subject End: 135 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtat....... aaaggatggttcagttacatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggttttgtgttttacgggcttggtat....... Subject: NC_003098_spr1608_spr1609|ribosomal protein L11 methyltransferase:7, 8-dihydro-8-oxoguanine- triphosphatase|NEGATIVE:NEGATIVE|[1584958,1585067]|110 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 106 Query Start:1 Query End:106 Subject Strand: NEGATIVE Subject Start: 5 Subject End: 110 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttgg............................... aaaggatggttcagttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttgg............................... Subject: NC_009009_SSA_0240_SSA_0241|Acetyltransferase, GNAT family, putative:Ribosomal protein L11 methyltransferase, putative|POSITIVE:POSITIVE|[234021,234160]|140 HSP 1 e-value: 1.0E-46 bit: 186.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 7 Subject End: 136 aaaggatggttcggttaaatttctaaactgaacccgccctaaacactgtgccaaaaagataaacttctcttagacacaagcgtcttcagagaatttcctattttggctttgtgttttacgggcttggtat....... aaaggattgttcagttaaatttctaaactgaacccgccctaaacactgtggcaaaaagataaaattctcttagacgcaaacgtcgtcagagaatttcctgttttggatttgtgttttacgggcttggtat....... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGGAUGGUUCGGUUAAAUUUCUAAACUGAACCCGCCCUAAACACUGUGCCAAAAAGAUAAACUUCUCUUAGACACAAGCGUCUUCAGAGAAUUUCCUAUUUUGGCUUUGUGUUUUACGGGCUUGGUAUCUUAAUA ..((((((((((((((.........))))))))).((((.((((((...(((((((....(((.((((((.((((......))))..)))))))))....)))))))...))))))...)))).....))))).... (-44.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUAAGAUACCAAGCCCGUAAAACACAAAGCCAAAAUAGGAAAUUCUCUGAAGACGCUUGUGUCUAAGAGAAGUUUAUCUUUUUGGCACAGUGUUUAGGGCGGGUUCAGUUUAGAAAUUUAACCGAACCAUCCUUU ..............((((...((((((...(((((((...(((.((((((..(((((....))))).)))))).)))....)))))))...)))))).)))).(((((.(((.(....)..))).)))))....... (-45.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 109 64 199 156 smit:SMT_1619|5end_K02006_cobalt_transport_system_ATP-binding_protein_1606526..1606756_NEGATIVE 312 107 63 144 96 smit:SMT_689|5end_aspartate_carbamoyltransferase_601628..601858_NEGATIVE 286 62 26 208 172 smit:SMT_185|5end_50S_ribosomal_protein_L6_122003..122233_POSITIVE 280 126 81 85 44 smit:SMT_896|5end_hypothetical_protein_844003..844233_NEGATIVE 265 58 11 145 91 smit:SMT_1609|5end_hypothetical_protein_1598113..1598343_POSITIVE 258 130 84 66 19 smit:SMT_704|5end_Cof_family_protein_613662..613892_POSITIVE 253 128 85 192 136 smit:SMT_649|5end_NADP-dependent_glyceraldehyde-3-phosphate_dehydrogenase_557351..557581_NEGATIVE 252 124 81 132 89 smit:SMT_1792|5end_K03307_solute:Na+_symporter,_SSS_family_1767774..1768004_NEGATIVE 252 124 81 132 89 smit:SMT_1175|5end_K03307_solute:Na+_symporter,_SSS_family_1127660..1127890_NEGATIVE 246 129 81 202 155 smit:SMT_1717|5end_DNA-3-methyladenine_glycosylase_I_1704274..1704504_NEGATIVE 246 59 11 189 137 smit:SMT_1091|5end_competence-specific_global_transcription_modulator_1033040..1033270_NEGATIVE 246 129 86 196 143 smit:SMT_825|5end_aspartate_aminotransferase_749594..749824_NEGATIVE 245 61 28 41 10 smit:SMT_445|5end_hypothetical_protein_384309..384539_POSITIVE 242 126 88 139 93 smit:SMT_1531|5end_hypothetical_protein_1515997..1516227_NEGATIVE 242 48 4 52 1 smit:SMT_361|5end_hypothetical_protein_295914..296144_POSITIVE 241 49 3 79 29 smit:SMT_407|5end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_351365..351595_POSITIVE 239 130 81 205 153 smit:SMT_723|5end_hypothetical_protein_629475..629705_NEGATIVE 239 110 65 220 169 smit:SMT_708|5end_hypothetical_protein_618021..618251_NEGATIVE 237 100 53 132 78 smit:SMT_1500|5end_K03742_competence/damage-inducible_protein_CinA_N-terminal_domain_1483384..1483614_POSITIVE 237 47 2 231 180 smit:SMT_1087|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_1024165..1024395_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 107 63 125 77 smit:SMT_690|3end_pyrimidine_regulatory_protein_601647..601797_NEGATIVE 298 47 3 99 51 smit:SMT_1261|3end_MutT/NUDIX_family_protein_1227094..1227244_POSITIVE 280 126 81 73 32 smit:SMT_897|3end_serine_O-acetyltransferase_844015..844165_NEGATIVE 279 130 83 83 40 smit:SMT_184|3end_30S_ribosomal_protein_S8_121891..122041_POSITIVE 270 116 79 38 3 smit:SMT_1620|3end_hypothetical_protein_1606695..1606845_NEGATIVE 265 58 11 148 94 smit:SMT_1608|3end_hypothetical_protein_1598196..1598346_POSITIVE 264 50 2 57 2 smit:SMT_1089|3end_hypothetical_protein_1024343..1024493_NEGATIVE 258 130 84 53 6 smit:SMT_703|3end_hypothetical_protein_613729..613879_POSITIVE 252 124 81 130 87 smit:SMT_1176|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1127662..1127812_NEGATIVE 248 99 51 149 105 smit:SMT_773|3end_UDP-N-acetylenolpyruvoylglucosamine_reductase_683460..683610_NEGATIVE 246 59 11 69 17 smit:SMT_1092|3end_transcription_antitermination_factor_1033160..1033310_NEGATIVE 242 126 88 142 96 smit:SMT_1532|3end_hypothetical_protein_1515994..1516144_NEGATIVE 242 48 4 59 8 smit:SMT_360|3end_K07742_hypothetical_protein_296001..296151_POSITIVE 239 104 67 49 1 smit:SMT_1728|3end_exodeoxyribonuclease_VII_large_subunit_1714668..1714818_POSITIVE 238 130 81 83 32 smit:SMT_183|3end_30S_ribosomal_protein_S14_121279..121429_POSITIVE 237 100 53 93 39 smit:SMT_1499|3end_K03742_competence/damage-inducible_protein_CinA_N-terminal_domain_1483425..1483575_POSITIVE 237 114 71 80 39 smit:SMT_1005|3end_possible_aluminum_resistance_protein_946679..946829_POSITIVE 236 108 62 65 13 smit:SMT_485|3end_hypothetical_protein_420229..420379_NEGATIVE 230 87 43 77 31 smit:SMT_1864|3end_integral_membrane_protein_1827172..1827322_POSITIVE 230 129 88 52 14 smit:SMT_726|3end_ImpB/MucB/SamB_family_protein_630412..630562_NEGATIVE