Origin IGS: taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgactctccagtttttcttaaaagtaaatatggtgtccgcataattctctgaaaagttgcatattttcggtcgtaagaagcaaaggatttctcaaccgttta Mask Tandem Repeat Region ================================================ taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Find is-nt database================================================ Query_seq: TF1789:TF1790|TF1789:TF1790:conserved hypothetical protein:conserved hypothetical protein:->->:1931265..1931366 102 taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1789:TF1790|TF1789:TF1790:conserved hypothetical protein:conserved hypothetical protein:->->:1931265..1931366 102 taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1789:TF1790|TF1789:TF1790:conserved hypothetical protein:conserved hypothetical protein:->->:1931265..1931366 102 taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Predict ORF larger than 30AA ================================================ taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca 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================================================ taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1789:TF1790|TF1789:TF1790:conserved hypothetical protein:conserved hypothetical protein:->->:1931265..1931366 102 taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: tfor_TF1789_TF1790|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1931265,1931366]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca taaacggttgagaaatcctttgcttcttacgaccgaaaatatgcaacttttcagagaattatgcggacaccatatttacttttaagaaaaactggagagtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACGGUUGAGAAAUCCUUUGCUUCUUACGACCGAAAAUAUGCAACUUUUCAGAGAAUUAUGCGGACACCAUAUUUACUUUUAAGAAAAACUGGAGAGUCA ....((((((((((.........))))..))))))..........(((((((((.....((((.(....)))))....((....)).....))))))))).. (-18.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACUCUCCAGUUUUUCUUAAAAGUAAAUAUGGUGUCCGCAUAAUUCUCUGAAAAGUUGCAUAUUUUCGGUCGUAAGAAGCAAAGGAUUUCUCAACCGUUUA (((...(((..(.(((((((............(((....)))......(((((((........)))))))...))))))).)..)))....)))........ (-13.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 79 39 225 193 tfor:TF0825|5end_hypothetical_protein_883597..883827_POSITIVE 271 64 21 109 69 tfor:TF1963|5end_hypothetical_protein_2113359..2113589_POSITIVE 271 43 3 209 159 tfor:TF0302|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_328641..328871_POSITIVE 268 44 5 191 141 tfor:TF1224|5end_hypothetical_protein_1311203..1311433_POSITIVE 255 67 21 218 176 tfor:TF1109|5end_lipoprotein_1178784..1179014_POSITIVE 251 35 6 64 34 tfor:TF2459|5end_conserved_hypothetical_protein_2635787..2636017_POSITIVE 249 37 4 144 113 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 247 66 33 62 19 tfor:TF2284|5end_hypothetical_protein_2440557..2440787_POSITIVE 247 67 21 122 70 tfor:TF0962|5end_possible_amidohydrolase_1011593..1011823_POSITIVE 246 69 21 197 153 tfor:TF0050|5end_hypothetical_protein_55059..55289_POSITIVE 245 46 3 57 8 tfor:TF2146|5end_secreted_sulfatase_ydeN_precursor_2320219..2320449_POSITIVE 243 58 15 63 2 tfor:TF3067|5end_conserved_hypothetical_protein_3292432..3292662_POSITIVE 242 45 3 171 135 tfor:TF1013|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)(+))_(NAD(P)H-dependent_dihydroxyacetone-phosphate_reductase)_1070011..1070241_POSITIVE 242 46 7 143 101 tfor:TF0323|5end_NAD-dependent_epimerase/dehydratase_family_protein_349933..350163_POSITIVE 242 70 30 47 4 tfor:TF0240|5end_conserved_hypothetical_protein;_possible_gycosyltransferase_I_family_protein_270086..270316_POSITIVE 241 44 5 191 140 tfor:TF2790|5end_prismane_protein,_hybrid-cluster_protein_2973397..2973627_POSITIVE 240 35 3 191 159 tfor:TF2611|5end_conserved_hypothetical_protein_2787204..2787434_POSITIVE 240 52 18 207 169 tfor:TF2490|5end_4-hydroxyphenylacetate-3-hydroxylase/4-hydroxybut_yryl_dehydratase_2665218..2665448_POSITIVE 240 45 2 128 69 tfor:TF0642|5end_exported_transglycosylase,_extracellular_solute-binding_protein,_family_3_682796..683026_POSITIVE 239 57 21 222 189 tfor:TF2673|5end_conserved_hypothetical_protein_2846987..2847217_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 37 4 144 113 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 247 67 21 122 70 tfor:TF0961|3end_translation_initiation_inhibitor,_endoribonuclease_activity_1011673..1011823_POSITIVE 242 45 3 136 100 tfor:TF1012|3end_lysyl-tRNA_synthetase_(lysine--tRNA_ligase)_1070056..1070206_POSITIVE 242 46 7 96 54 tfor:TF0322|3end_possible_YngK_protein_349966..350116_POSITIVE 241 44 5 79 28 tfor:TF2789|3end_enoyl-[acyl-carrier-protein]_reductase_2973365..2973515_POSITIVE 240 35 3 148 116 tfor:TF2610|3end_nitroreductase_2787241..2787391_POSITIVE 229 50 4 55 19 tfor:TF0464|3end_precorrin_methylase_482108..482258_POSITIVE 227 67 21 71 8 tfor:TF2092|3end_ribonuclease_III_2261823..2261973_POSITIVE 223 44 5 52 16 tfor:TF0214|3end_DNA_recombination_and_repair_protein,_RecN_241571..241721_POSITIVE 222 65 21 94 57 tfor:TF1227|3end_hypothetical_protein_1314231..1314381_POSITIVE 220 35 5 114 80 tfor:TF3154|3end_conserved_hypothetical_protein_3390489..3390639_POSITIVE 220 45 16 151 124 tfor:TF0441|3end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_3_465314..465464_POSITIVE 216 45 4 136 95 tfor:TF3036|3end_glucose/galactose_transporter_3263051..3263201_POSITIVE 214 67 29 141 97 tfor:TF1916|3end_conserved_hypothetical_protein;_possible_ATPase_2069938..2070088_POSITIVE 214 35 6 122 83 tfor:TF1832|3end_3-isopropylmalate_dehydratase,_small_subunit_1981502..1981652_POSITIVE 213 67 27 32 3 tfor:TF0213|3end_conserved_hypothetical_protein_239903..240053_POSITIVE 212 65 21 79 34 tfor:TF2019|3end_dipeptidyl_peptidase_VI_2176401..2176551_POSITIVE 210 62 32 63 35 tfor:TF2401|3end_conserved_hypothetical_protein_2574702..2574852_POSITIVE 209 65 21 46 6 tfor:TF1257|3end_hypothetical_protein_1338353..1338503_POSITIVE 208 44 3 121 76 tfor:TF2694|3end_hypothetical_protein_2870863..2871013_POSITIVE