Origin IGS: ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctatagagtagacagtaggtctggggtctttgcctcaggccttttgtcataaatgtcagcattagtcatgaggagctttaatatttttcagaaaaagaacggacagaagggctttcttaggcgctttgtggtaaaatagtaacagaattaaaaatttggagagtaaag Mask Tandem Repeat Region ================================================ ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Find is-nt database================================================ Query_seq: SSA_2270:SSA_2271|SSA_2270:SSA_2271:Aspartyl-tRNA synthetase, putative:hypothetical protein:<-<-:2272159..2272327 169 ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2270:SSA_2271|SSA_2270:SSA_2271:Aspartyl-tRNA synthetase, putative:hypothetical protein:<-<-:2272159..2272327 169 ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2270:SSA_2271|SSA_2270:SSA_2271:Aspartyl-tRNA synthetase, putative:hypothetical protein:<-<-:2272159..2272327 169 ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Predict ORF larger than 30AA ================================================ ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga 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================================================ ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_2270:SSA_2271|SSA_2270:SSA_2271:Aspartyl-tRNA synthetase, putative:hypothetical protein:<-<-:2272159..2272327 169 ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Intra-Species Hit: Count: 1 Min: 1 Max: 169 Len: 169 Subject: NC_009009_SSA_2270_SSA_2271|Aspartyl-tRNA synthetase, putative:hypothetical protein|NEGATIVE:NEGATIVE|[2272159,2272327]|169 HSP 1 e-value: 3.0E-91 bit: 335.0 Len: 169 Query Start:1 Query End:169 Subject Strand: POSITIVE Subject Start: 1 Subject End: 169 ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga ctttactctccaaatttttaattctgttactattttaccacaaagcgcctaagaaagcccttctgtccgttctttttctgaaaaatattaaagctcctcatgactaatgctgacatttatgacaaaaggcctgaggcaaagaccccagacctactgtctactctataga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUACUCUCCAAAUUUUUAAUUCUGUUACUAUUUUACCACAAAGCGCCUAAGAAAGCCCUUCUGUCCGUUCUUUUUCUGAAAAAUAUUAAAGCUCCUCAUGACUAAUGCUGACAUUUAUGACAAAAGGCCUGAGGCAAAGACCCCAGACCUACUGUCUACUCUAUAGA ......................(((((...................((((.....((.((((.((((..(((.......)))......((((..((..(((.....)))..))..)))).)))).)))).)).)))).........((((.....)))).....))))) (-22.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAUAGAGUAGACAGUAGGUCUGGGGUCUUUGCCUCAGGCCUUUUGUCAUAAAUGUCAGCAUUAGUCAUGAGGAGCUUUAAUAUUUUUCAGAAAAAGAACGGACAGAAGGGCUUUCUUAGGCGCUUUGUGGUAAAAUAGUAACAGAAUUAAAAAUUUGGAGAGUAAAG ....((((((.(((((.(((((((((((....))))))))))).)))))...((((....))))...........)))))).(((((((((((......((.(...((((.((((....)))).)))).).))....((((......))))....)))))))))))... (-46.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 910 140 91 231 182 NC_009009:SSA_2270|5end_Aspartyl-tRNA_synthetase,_putative_2272068..2272298_NEGATIVE 379 80 35 68 18 NC_009009:SSA_1528|5end_Phosphoglycerate_mutase,_putative_1535135..1535365_POSITIVE 346 160 121 47 11 NC_009009:SSA_0794|5end_Zn-dependent_protease,_putative_775896..776126_POSITIVE 326 137 94 82 29 NC_009009:SSA_0882|5end_Phosphoserine_phosphatase,_putative_876903..877133_POSITIVE 308 157 124 77 37 NC_009009:SSA_1634|5end_Heme_utilization/adhesion_exoprotein,_putative_1637062..1637292_NEGATIVE 304 68 21 159 114 NC_009009:SSA_0964|5end_DEAD_RNA_helicase,_putative_974114..974344_NEGATIVE 303 147 102 65 9 NC_009009:SSA_0642|5end_Type_4_prepilin_peptidase,_putative_630053..630283_NEGATIVE 293 76 37 79 45 NC_009009:SSA_1922|5end_hypothetical_protein_1912106..1912336_NEGATIVE 292 80 43 153 123 NC_009009:SSA_1010|5end_UDP-glucose_4-epimerase,_putative_1012739..1012969_POSITIVE 290 70 23 197 154 NC_009009:SSA_0030|5end_Phosphoribosylformylglycinamidine_synthase,_putative_32610..32840_POSITIVE 286 139 93 60 19 NC_009009:SSA_1606|5end_Dephospho-CoA_kinase,_putative_1612425..1612655_NEGATIVE 285 146 109 38 1 NC_009009:SSA_1468|5end_3-dehydroquinate_synthase,_putative_1475452..1475682_NEGATIVE 282 74 31 227 182 NC_009009:SSA_0325|5end_Membrane-anchored_glycerophosphoryl_diester_phosphodiesterase,_putative_317603..317833_POSITIVE 281 143 107 204 161 NC_009009:SSA_0424|5end_Exopolysaccharide_biosynthesis_protein,_putative_422233..422463_NEGATIVE 281 95 52 207 167 NC_009009:SSA_0212|5end_Phenylalanyl-tRNA_synthetase,_beta_subunit,_putative_208373..208603_POSITIVE 280 147 125 71 46 NC_009009:SSA_0614|5end_Transporter,_putative_607974..608204_NEGATIVE 279 134 94 44 4 NC_009009:SSA_1725|5end_Branched-chain_amino_acid_ABC_transporter,_ATP-binding_protein,_putative_1711703..1711933_NEGATIVE 275 156 128 152 120 NC_009009:SSA_1559|5end_Conserved_uncharacterized_protein_1561656..1561886_NEGATIVE 272 149 104 56 22 NC_009009:SSA_1325|5end_Ketoacyl_reductase_hetN,_putative_1342343..1342573_NEGATIVE 271 82 46 70 31 NC_009009:SSA_1053|5end_Pyruvate_phosphate_dikinase,_putative_1070068..1070298_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 76 37 65 31 NC_009009:SSA_1923|3end_NADPH-q_uinone_reductase_(modulator_of_drug_activity_B),_putative_1912120..1912270_NEGATIVE 292 80 43 149 119 NC_009009:SSA_1009|3end_Galactose-1-phosphate-uridylyltransferase,_putative_1012815..1012965_POSITIVE 286 139 93 54 13 NC_009009:SSA_1607|3end_Formamidopyrimidine-DNA_glycosylase,_putative_1612431..1612581_NEGATIVE 285 79 31 149 92 NC_009009:SSA_0324|3end_Conserved_uncharacterized_protein_317593..317743_POSITIVE 279 134 94 44 4 NC_009009:SSA_1726|3end_ABC_transporter_ATP-binding_protein-branched_chain_amino_acid_transport,_putative_1711703..1711853_NEGATIVE 277 147 116 46 8 NC_009009:SSA_0643|3end_hypothetical_protein_630072..630222_NEGATIVE 275 156 128 150 118 NC_009009:SSA_1560|3end_Structural_maintenance_of_chromosome_protein_(chromosome_segregation_ATPase),_putative_1561658..1561808_NEGATIVE 270 137 95 48 2 NC_009009:SSA_0881|3end_Lipoprotein,_putative_876949..877099_POSITIVE 268 149 101 59 9 NC_009009:SSA_1728|3end_ABC_transporter_membrane-spanning_permease-branched_chain_amino_acid_transport,_putative_1713424..1713574_NEGATIVE 264 154 119 53 22 NC_009009:SSA_0407|3end_ABC-type_multidrug_transport_system_(3-component_subtilin_immunity_exporter),_ATPase_component,_putative_402911..403061_NEGATIVE 263 133 93 76 35 NC_009009:SSA_0488|3end_Glutamate-1-semialdehyde_2,1-aminotransferase,_putative_489742..489892_POSITIVE 263 130 91 133 97 NC_009009:SSA_0270|3end_Phosphotransferase_system_(PTS)_cellobiose-specific,_IIC_component,_putative_264314..264464_POSITIVE 261 81 47 120 89 NC_009009:SSA_0427|3end_DNA-binding_transcriptional_activator,_SARP_family,_putative_427615..427765_POSITIVE 261 146 102 115 73 NC_009009:SSA_0083|3end_hypothetical_protein_85840..85990_POSITIVE 259 159 125 79 22 NC_009009:SSA_0756|3end_Alanyl-tRNA_synthetase,_putative_739434..739584_POSITIVE 258 88 41 60 7 NC_009009:SSA_1893|3end_N-acetylglucosamine-6-phosphate_deacetylase,_putative_1889421..1889571_NEGATIVE 257 81 42 90 48 NC_009009:SSA_0148|3end_Sugar_ABC_transporter,_ATP-binding_protein,_putative_143467..143617_POSITIVE 256 75 33 121 77 NC_009009:SSA_2178|3end_hypothetical_protein_2176288..2176438_NEGATIVE 255 137 94 132 95 NC_009009:SSA_0967|3end_hypothetical_protein_976620..976770_POSITIVE 255 158 121 55 20 NC_009009:SSA_0832|3end_SecY-like_protein,_putative_818011..818161_POSITIVE