Origin IGS: aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa .........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 ttacagccaccgtcttaaacggctctgtggggtgttgttgtcgcaacacctttttctatatttattgtaacatttatttgaaaaattgcaaggggaattgttctactttagcagtgtctgatataaaatagaaattgaaaaaaatgctaaaatccgatataatggagtgttgaaaggaatggtaaaatccaatgtagaaatcattcttagctattgaaacaagaaaaatagagaatcaaagaaagagaactt Mask Tandem Repeat Region ================================================ aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Find is-nt database================================================ Query_seq: SMT_998:SMT_999|SMT_998:SMT_999:peptide chain release factor 3:hypothetical protein predicted by Glimmer/Critica:<-<-:941334..941585 252 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_998:SMT_999|SMT_998:SMT_999:peptide chain release factor 3:hypothetical protein predicted by Glimmer/Critica:<-<-:941334..941585 252 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_998:SMT_999|SMT_998:SMT_999:peptide chain release factor 3:hypothetical protein predicted by Glimmer/Critica:<-<-:941334..941585 252 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 49 End: 147 ................................................ M I S T L D F T I P F N T P L Y R I L A F F S I S I L Y Q T L L K ......................................................................................................... Protein_Len: 51 Strand: + Start: 24 End: 176 ....................... M F L V S I A K N D F Y I G F Y H S F Q H S I I S D F S I F F N F Y F I S D T A K V E Q F P L Q F F K ............................................................................ Protein_Len: 34 Strand: - Start: 125 End: 226 ............................................................................................................................ K I D S V A L T S C N G K C N K L Y I N C Y I Y F F T N R C C C G M .......................... aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 91 Start: 90 End: 119 .........................................................................................ATTGAAAAAAATGCTAAAATCCGATATAAT..................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_998:SMT_999|SMT_998:SMT_999:peptide chain release factor 3:hypothetical protein predicted by Glimmer/Critica:<-<-:941334..941585 252 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Intra-Species Hit: Count: 1 Min: 1 Max: 252 Len: 252 Subject: smit_SMT_998_SMT_999|peptide chain release factor 3:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[941334,941585]|252 HSP 1 e-value: 1.0E-128 bit: 458.0 Len: 252 Query Start:1 Query End:252 Subject Strand: POSITIVE Subject Start: 1 Subject End: 252 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcannnnnnncaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagcatttttttcaatttctattttatatcagacactgctaaagtagaacaattccccttgcaatttttcaaataaatgttacaataaatatagaaaaaggtgttgcgacaacaacaccccacagagccgtttaagacggtggctgtaa Inter-species Hit: Count: 3 Min: 1 Max: 108 Len: 108 Subject: NC_003028_SP_0438_SP_0439|aspartyl/glutamyl-tRNA amidotransferase subunit C:peptide chain release factor 3|NEGATIVE:POSITIVE|[412230,412441]|212 HSP 1 e-value: 6.0E-50 bit: 198.0 Len: 108 Query Start:1 Query End:108 Subject Strand: NEGATIVE Subject Start: 105 Subject End: 212 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagca................................................................................................................................................ aagttctctttctttgattctctatttttcttgtttcaatagctgagaatgatttttacattggattttaccattcctttcaacactccattatatcggattttagca................................................................................................................................................ Subject: NC_008533_SPD_0398_SPD_0399|glutamyl-tRNA(Gln) amidotransferase, C subunit:peptide chain release factor 3|NEGATIVE:POSITIVE|[399679,399890]|212 HSP 1 e-value: 2.0E-47 bit: 190.0 Len: 108 Query Start:1 Query End:108 Subject Strand: NEGATIVE Subject Start: 105 Subject End: 212 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagca................................................................................................................................................ aagttctctttctttgattctctatttttcttgtttcaatagctgagaatgatttttacattggattttaccattcctttcaatactccattatatcggattttagca................................................................................................................................................ Subject: NC_003098_spr0395_spr0396|aspartyl/glutamyl-tRNA amidotransferase subunit C:peptide chain release factor 3|NEGATIVE:POSITIVE|[392150,392361]|212 HSP 1 e-value: 2.0E-47 bit: 190.0 Len: 108 Query Start:1 Query End:108 Subject Strand: NEGATIVE Subject Start: 105 Subject End: 212 aagttctctttctttgattctctatttttcttgtttcaatagctaagaatgatttctacattggattttaccattcctttcaacactccattatatcggattttagca................................................................................................................................................ aagttctctttctttgattctctatttttcttgtttcaatagctgagaatgatttttacattggattttaccattcctttcaatactccattatatcggattttagca................................................................................................................................................ Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUUCUCUUUCUUUGAUUCUCUAUUUUUCUUGUUUCAAUAGCUAAGAAUGAUUUCUACAUUGGAUUUUACCAUUCCUUUCAACACUCCAUUAUAUCGGAUUUUAGCA .............((((..(............)..))))..(((((((.((((........((((.....................))))....))))..))))))). (-11.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUAAAAUCCGAUAUAAUGGAGUGUUGAAAGGAAUGGUAAAAUCCAAUGUAGAAAUCAUUCUUAGCUAUUGAAACAAGAAAAAUAGAGAAUCAAAGAAAGAGAACUU .((((.....((((((......))))))...((((((((................))))))))))))......................................... (-11.49) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 809 90 41 181 132 smit:SMT_998|5end_peptide_chain_release_factor_3_941243..941473_NEGATIVE 267 98 53 123 84 smit:SMT_815|5end_hypothetical_protein_724294..724524_NEGATIVE 247 88 46 177 136 smit:SMT_463|5end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_401926..402156_POSITIVE 239 58 11 178 127 smit:SMT_1739|5end_hypothetical_protein_1721263..1721493_POSITIVE 233 43 1 209 159 smit:SMT_1494|5end_nucleoside_diphosphate_kinase_1479500..1479730_POSITIVE 229 66 21 87 36 smit:SMT_1687|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_1670400..1670630_POSITIVE 222 44 1 156 107 smit:SMT_702|5end_hypothetical_protein_612311..612541_NEGATIVE 221 43 6 134 99 smit:SMT_908|5end_hypothetical_protein_857230..857460_NEGATIVE 212 57 13 83 43 smit:SMT_1499|5end_K03742_competence/damage-inducible_protein_CinA_N-terminal_domain_1483091..1483321_POSITIVE 212 100 59 127 89 smit:SMT_1087|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_1024165..1024395_NEGATIVE 210 100 53 149 104 smit:SMT_2057|5end_cell_division_protein_FtsH_1967283..1967513_NEGATIVE 210 90 43 122 72 smit:SMT_1855|5end_K03650_tRNA_modification_GTPase_1819711..1819941_POSITIVE 210 43 6 219 180 smit:SMT_1335|5end_RNA_polymerase_sigma_factor_RpoD_1310201..1310431_NEGATIVE 210 100 53 149 104 smit:SMT_101|5end_cell_division_protein_32029..32259_POSITIVE 209 90 42 108 42 smit:SMT_401|5end_peptide_methionine_sulfoxide_reductase_329663..329893_POSITIVE 205 99 55 204 165 smit:SMT_1727|5end_uridine_kinase_1712483..1712713_POSITIVE 204 43 4 98 58 smit:SMT_1089|5end_hypothetical_protein_1024561..1024791_NEGATIVE 203 43 1 149 104 smit:SMT_1251|5end_hypothetical_protein_1212300..1212530_NEGATIVE 203 36 5 128 91 smit:SMT_957|5end_UDP-glucose_4-epimerase_905003..905233_NEGATIVE 203 36 5 128 91 smit:SMT_950|5end_UDP-glucose_4-epimerase_898696..898926_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 267 98 53 75 36 smit:SMT_816|3end_SWF/SNF_family_helicase_724342..724492_NEGATIVE 233 43 1 123 73 smit:SMT_1493|3end_DNA-directed_RNA_polymerase,_beta'_subunit/160_kD_subunit_1479494..1479644_POSITIVE 225 48 2 76 30 smit:SMT_256|3end_K02027_multiple_sugar_transport_system_substrate-binding_protein_194282..194432_POSITIVE 221 43 6 141 106 smit:SMT_909|3end_type_I_restriction_enzyme_M_protein_857223..857373_NEGATIVE 212 100 59 140 102 smit:SMT_1088|3end_hypothetical_protein_1024152..1024302_NEGATIVE 210 100 53 133 88 smit:SMT_2058|3end_hypoxanthine-guanine_phosphoribosyltransferase_1967299..1967449_NEGATIVE 210 100 53 133 88 smit:SMT_100|3end_hypoxanthine-guanine_phosphoribosyltransferase_32093..32243_POSITIVE 209 90 42 98 32 smit:SMT_400|3end_hypothetical_protein_329733..329883_POSITIVE 205 99 55 94 55 smit:SMT_1726|3end_tRNA_pseudouridine_synthase_B_1712453..1712603_POSITIVE 201 50 7 127 84 smit:SMT_552|3end_DNA_polymerase_III,_gamma_and_tau_subunits_471180..471330_POSITIVE 198 50 2 83 36 smit:SMT_1684|3end_acetyltransferase,_GNAT_family_1667248..1667398_NEGATIVE 198 78 41 149 106 smit:SMT_1013|3end_galactose-1-phosphate_uridylyltransferase_949601..949751_NEGATIVE 198 89 42 106 51 smit:SMT_707|3end_hypothetical_protein_predicted_by_Glimmer/Critica_616239..616389_NEGATIVE 196 45 7 122 84 smit:SMT_1203|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1164221..1164371_NEGATIVE 195 34 5 139 110 smit:SMT_1876|3end_transcriptional_regulator,_MarR_family_1834135..1834285_POSITIVE 195 53 13 117 69 smit:SMT_175|3end_50S_ribosomal_protein_L22_118148..118298_POSITIVE 194 87 42 151 107 smit:SMT_2025|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1940995..1941145_NEGATIVE 192 56 13 126 79 smit:SMT_1915|3end_pyridoxine_biosynthesis_protein_1860618..1860768_POSITIVE 192 89 45 150 112 smit:SMT_1319|3end_muscus_binding_protein_1289974..1290124_POSITIVE 191 64 23 150 112 smit:SMT_1436|3end_conserved_hypothetical_protein_TIGR00147_1420374..1420524_NEGATIVE