Origin IGS: attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt .........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 aagcagatgctccgcccatgggataggactcgtagaatgaggaggaaaaccgacgaaatgatacggtaagtccgaaccgctgagtgtgtggctctgctcttccgatctgagacagtcgaaaagtagaaggggatggtattggtatcaatcaatgagtaacaaagtaacagcatgattcgaaacatttgcttgtaatttgcggaggaacatcaat Mask Tandem Repeat Region ================================================ attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Find is-nt database================================================ Query_seq: SSA_2384:SSA_1459|SSA_2384:SSA_1459:Acetyltransferase, GNAT family, putative:RNA methyltransferase, putative:<-<-:1465987..1466200 214 attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2384:SSA_1459|SSA_2384:SSA_1459:Acetyltransferase, GNAT family, putative:RNA methyltransferase, putative:<-<-:1465987..1466200 214 attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2384:SSA_1459|SSA_2384:SSA_1459:Acetyltransferase, GNAT family, putative:RNA methyltransferase, putative:<-<-:1465987..1466200 214 attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 30 End: 212 ............................. M F R I M L L L C Y S L I D T N T I P F Y F S T V S D R K S R A T H S A V R T Y R I I S S V F L L I L R V L S H G R S I .. Protein_Len: 49 Strand: + Start: 67 End: 213 .................................................................. M I P I P S P S T F R L S Q I G R A E P H T Q R F G L T V S F R R F S S S F Y E S Y P M G G A S A . Protein_Len: 31 Strand: - Start: 43 End: 135 .......................................... A T V K N S M S Q Y W Y W G R R S K S Q R L D S S C L W V S M ............................................................................... attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt 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================================================ attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 41 HP_score: -2.3 Tail_Score: -2.89848 Start: 137 End: 155 Full_Region: AGCCACACACTCAGC GGTTCGG ACTTA CCGTATC ATTTCGTCGGTTTTC ........................................................................................................................................GGTTCGGACTTACCGTATC........................................................... Find igs database================================================ Query_seq: SSA_2384:SSA_1459|SSA_2384:SSA_1459:Acetyltransferase, GNAT family, putative:RNA methyltransferase, putative:<-<-:1465987..1466200 214 attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Intra-Species Hit: Count: 1 Min: 1 Max: 214 Len: 214 Subject: NC_009009_SSA_2384_SSA_1459|Acetyltransferase, GNAT family, putative:RNA methyltransferase, putative|NEGATIVE:NEGATIVE|[1465987,1466200]|214 HSP 1 e-value: 1.0E-118 bit: 424.0 Len: 214 Query Start:1 Query End:214 Subject Strand: POSITIVE Subject Start: 1 Subject End: 214 attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt attgatgttcctccgcaaattacaagcaaatgtttcgaatcatgctgttactttgttactcattgattgataccaataccatccccttctacttttcgactgtctcagatcggaagagcagagccacacactcagcggttcggacttaccgtatcatttcgtcggttttcctcctcattctacgagtcctatcccatgggcggagcatctgctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGAUGUUCCUCCGCAAAUUACAAGCAAAUGUUUCGAAUCAUGCUGUUACUUUGUUACUCAUUGAUUGAUACCAAUACCAUCCCCUUCUACUUUUCGACUGUCUCAGAUCGGAAGAGCAGAGCCACACACUCAGCGGUUCGGACUUACCGUAUCAUUUCGUCGGUUUUCCUCCUCAUUCUACGAGUCCUAUCCCAUGGGCGGAGCAUCUGCUU ...((((((((.((.((((..(((.(((..((........))))))))...))))..((((...((.(((.......................(((((((((...))).))))))(((.((((((((.......(((((........)))))........)).)))))).))).))).))...))))...........)).))))))))..... (-45.76) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCAGAUGCUCCGCCCAUGGGAUAGGACUCGUAGAAUGAGGAGGAAAACCGACGAAAUGAUACGGUAAGUCCGAACCGCUGAGUGUGUGGCUCUGCUCUUCCGAUCUGAGACAGUCGAAAAGUAGAAGGGGAUGGUAUUGGUAUCAAUCAAUGAGUAACAAAGUAACAGCAUGAUUCGAAACAUUUGCUUGUAAUUUGCGGAGGAACAUCAAU .....((((((((((............((((((.((....(..((....))..)....((((((((((.((((...((((.......)))).((((((.(((.((.(((...)))))))).))))))...))))..)))).)))))).)).))))))....((((.((((((..............))).))).))))))))))...))))... (-53.84) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1020 140 91 231 182 NC_009009:SSA_2384|5end_Acetyltransferase,_GNAT_family,_putative_1465896..1466126_NEGATIVE 379 123 85 231 194 NC_009009:SSA_0964|5end_DEAD_RNA_helicase,_putative_974114..974344_NEGATIVE 373 167 123 58 8 NC_009009:SSA_2157|5end_ATP-dependent_serine_protease,_putative_2158241..2158471_NEGATIVE 369 145 101 206 163 NC_009009:SSA_1076|5end_hypothetical_protein_1094227..1094457_POSITIVE 356 169 122 61 4 NC_009009:SSA_0132|5end_DNA-directed_RNA_polymerase,_alpha_chain,_putative_121146..121376_POSITIVE 339 206 161 135 87 NC_009009:SSA_0912|5end_Phenylalanyl-tRNA_synthetase_alpha_chain,_putative_923100..923330_POSITIVE 339 189 141 204 161 NC_009009:SSA_0102|5end_Kinase,_putative_104035..104265_POSITIVE 334 139 97 163 121 NC_009009:SSA_0293|5end_hypothetical_protein_287613..287843_NEGATIVE 330 137 100 60 25 NC_009009:SSA_0726|5end_FmtA-like_protein,_putative_710905..711135_POSITIVE 328 147 103 181 146 NC_009009:SSA_2184|5end_hypothetical_protein_2183754..2183984_NEGATIVE 326 114 82 136 96 NC_009009:SSA_1242|5end_Dihydroorotate_dehydrogenase_B,_putative_1267386..1267616_NEGATIVE 324 164 129 226 180 NC_009009:SSA_2215|5end_Oligosaccharide_repeat_unit_polymerase_Wzy,_putative_2217157..2217387_NEGATIVE 321 166 121 217 176 NC_009009:SSA_1463|5end_Shikimate_kinase,_putative_1470240..1470470_NEGATIVE 321 206 163 116 77 NC_009009:SSA_0786|5end_Proton-translocating_ATPase,_F1_sector,_alpha_subunit,_putative_768737..768967_POSITIVE 321 209 164 58 1 NC_009009:SSA_0090|5end_Acetyltransferase,_GNAT_family,_putative_90258..90488_POSITIVE 318 201 164 126 83 NC_009009:SSA_1429|5end_hypothetical_protein_1437110..1437340_NEGATIVE 317 136 95 208 152 NC_009009:SSA_0098|5end_Hydrolase,_haloacid_dehalogenase-like_family,_putative_99422..99652_POSITIVE 314 143 107 57 7 NC_009009:SSA_0695|5end_hypothetical_protein_678449..678679_POSITIVE 313 153 117 75 46 NC_009009:SSA_0069|5end_Hypothetical_protein,_possibly_membrane-associated_73037..73267_POSITIVE 312 210 162 165 115 NC_009009:SSA_0789|5end_Proton-translocating_ATPase,_F1_sector,_epsilon_subunit,_putative_772451..772681_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 339 210 171 122 82 NC_009009:SSA_1497|3end_DCMP_deaminase,_putative_1503068..1503218_NEGATIVE 338 124 82 59 20 NC_009009:SSA_0293|3end_hypothetical_protein_287356..287506_NEGATIVE 326 114 82 124 84 NC_009009:SSA_1243|3end_Dihydroorotate_dehydrogenase_electron_transfer_subunit,_putative_1267398..1267548_NEGATIVE 322 210 165 130 89 NC_009009:SSA_1338|3end_hypothetical_protein_1351200..1351350_NEGATIVE 318 201 164 129 86 NC_009009:SSA_1430|3end_Ribonuclease_Z,_putative_1437107..1437257_NEGATIVE 309 169 131 125 90 NC_009009:SSA_0810|3end_P-loop_ATPase,_putative_792552..792702_POSITIVE 307 153 111 144 102 NC_009009:SSA_0330|3end_hypothetical_protein_325162..325312_POSITIVE 306 145 101 128 82 NC_009009:SSA_0525|3end_Microcompartment_protein,_putative_523842..523992_POSITIVE 305 137 100 66 23 NC_009009:SSA_0636|3end_N-(5'-phosphoribosyl)anthranilate_isomerase,_putative_625809..625959_POSITIVE 303 180 131 113 54 NC_009009:SSA_2044|3end_Cysteinyl-tRNA_synthetase,_putative_2047066..2047216_NEGATIVE 301 180 132 96 44 NC_009009:SSA_0475|3end_CbiK_protein,_putative_478570..478720_POSITIVE 301 210 161 137 90 NC_009009:SSA_0165|3end_hypothetical_protein_164623..164773_POSITIVE 300 209 166 150 95 NC_009009:SSA_1880|3end_Glycyl-tRNA_synthetase_alpha_chain,_putative_1874265..1874415_NEGATIVE 300 174 132 68 14 NC_009009:SSA_1397|3end_hypothetical_protein_1410995..1411145_POSITIVE 299 199 156 149 81 NC_009009:SSA_1558|3end_Hydrolase,_HAD_superfamily_1560044..1560194_NEGATIVE 299 170 121 66 8 NC_009009:SSA_0544|3end_Phospho-2-dehydro-3-deoxyheptonate_aldolase,_putative_540930..541080_POSITIVE 296 210 178 130 96 NC_009009:SSA_2394|3end_Competence_stimulating_peptide_2385261..2385411_NEGATIVE 294 204 185 42 23 NC_009009:SSA_1937|3end_Malonyl-CoA:ACP_transacylase,_putative_1923851..1924001_NEGATIVE 293 127 81 147 82 NC_009009:SSA_2099|3end_ABC-type_arginine/histidine_transporter,_permease_protein,_putative_2103621..2103771_NEGATIVE 289 144 101 65 18 NC_009009:SSA_0287|3end_Glycerol_dehydrogenase,_NAD+_dependent,_putative_280702..280852_POSITIVE