Origin IGS: taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 accatctattcaaatatggcgtaaatataggtacaaaaaacgaatacggtattttttcgaaatgaaaaaaagcctctgaaaatagcgtattgttcaaaattgagtaatttactcattgaccagattta Mask Tandem Repeat Region ================================================ taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Find is-nt database================================================ Query_seq: TF0633:TF0635|TF0633:TF0635:hypothetical protein:glucosylceramidase precursor:->->:669233..669360 128 taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0633:TF0635|TF0633:TF0635:hypothetical protein:glucosylceramidase precursor:->->:669233..669360 128 taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0633:TF0635|TF0633:TF0635:hypothetical protein:glucosylceramidase precursor:->->:669233..669360 128 taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 4 End: 120 ... M W S M S K L L N F E Q Y A I F R G F F S F R K N T V F V F C T Y I Y A I F E ........ Protein_Len: 33 Strand: + Start: 29 End: 127 ............................ M L N N T L F S E A F F H F E K I P Y S F F V P I F T P Y L N R W . taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt 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================================================ taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0633:TF0635|TF0633:TF0635:hypothetical protein:glucosylceramidase precursor:->->:669233..669360 128 taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: tfor_TF0633_TF0635|hypothetical protein:glucosylceramidase precursor|POSITIVE:POSITIVE|[669233,669360]|128 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggcnnnnnnncatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt taaatctggtcaatgagtaaattactcaattttgaacaatacgctattttcagaggctttttttcatttcgaaaaaataccgtattcgttttttgtacctatatttacgccatatttgaatagatggt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCUGGUCAAUGAGUAAAUUACUCAAUUUUGAACAAUACGCUAUUUUCAGAGGCUUUUUUUCAUUUCGAAAAAAUACCGUAUUCGUUUUUUGUACCUAUAUUUACGCCAUAUUUGAAUAGAUGGU ...(((((.((((((.((((((...........((((((((((.((((((..((((..........))))...)))))).)))))).))))...........))))))..)))...))).)))))... (-21.15) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCAUCUAUUCAAAUAUGGCGUAAAUAUAGGUACAAAAAACGAAUACGGUAUUUUUUCGAAAUGAAAAAAAGCCUCUGAAAAUAGCGUAUUGUUCAAAAUUGAGUAAUUUACUCAUUGACCAGAUUUA .((((..........))))..(((((...(((.(((..(((.((((((.(((((((..((..............)).))))))).)))))))))......((((((...))))))))))))..))))) (-19.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 88 42 223 177 tfor:TF1835|5end_possible_dihydroxy-acid_dehydratase_1984201..1984431_POSITIVE 283 100 53 217 170 tfor:TF2948|5end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_late_synthase_3154823..3155053_POSITIVE 268 100 51 215 168 tfor:TF3051|5end_conserved_hypothetical_protein_3277649..3277879_POSITIVE 253 88 42 195 145 tfor:TF0166|5end_conserved_hypothetical_protein_175757..175987_POSITIVE 250 100 52 42 1 tfor:TF0336|5end_Xaa-Pro_aminopeptidase_360613..360843_POSITIVE 245 84 49 52 12 tfor:TF1147|5end_anthranilate_synthase_component_II_1227573..1227803_POSITIVE 244 99 55 228 179 tfor:TF0483|5end_outer_membrane_receptor_504034..504264_POSITIVE 241 100 51 94 38 tfor:TF2727|5end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2903273..2903503_POSITIVE 237 87 42 73 22 tfor:TF1974|5end_glyoxalase_I_related_protein_(lactoylglutathione_lyase)_2120950..2121180_POSITIVE 230 50 6 85 50 tfor:TF0613|5end_conserved_hypothetical_protein_646070..646300_POSITIVE 229 119 79 47 1 tfor:TF2677|5end_aspartate_transaminase_2850809..2851039_POSITIVE 228 99 55 53 7 tfor:TF2047|5end_hypothetical_protein_2210057..2210287_POSITIVE 226 114 80 226 189 tfor:TF2442|5end_heat_shock_protein_60_2618557..2618787_POSITIVE 225 88 47 106 61 tfor:TF1428|5end_conserved_hypothetical_protein_1513566..1513796_POSITIVE 225 100 55 186 142 tfor:TF0543|5end_glycine_cleavage_system_p-protein_572251..572481_POSITIVE 224 90 41 69 21 tfor:TF3078|5end_ribonucleoside_diphosphate_reductase,_alpha_subunit_3306609..3306839_POSITIVE 224 65 27 57 20 tfor:TF2558|5end_50S_ribosomal_protein_L22_2737459..2737689_POSITIVE 221 90 41 92 27 tfor:TF0324|5end_conserved_hypothetical_protein_351228..351458_POSITIVE 220 120 77 54 15 tfor:TF0440|5end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_2_463655..463885_POSITIVE 218 111 81 100 59 tfor:TF0055|5end_integrase_fragment,_N-terminal_58706..58936_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 266 88 42 102 42 tfor:TF1771|3end_prolipoprotein_diacylglyceryl_transferase_1910607..1910757_POSITIVE 262 89 43 149 101 tfor:TF0308|3end_hypothetical_protein_334082..334232_POSITIVE 250 100 52 60 19 tfor:TF0337|3end_hypothetical_protein_360711..360861_POSITIVE 230 50 6 72 37 tfor:TF0612|3end_conserved_hypothetical_protein_646137..646287_POSITIVE 228 99 55 68 22 tfor:TF2046|3end_polyribonucleotide_nucleotidyltransferase_2210152..2210302_POSITIVE 225 88 47 72 27 tfor:TF1427|3end_penicillin-binding_protein_2_1513612..1513762_POSITIVE 222 96 57 109 69 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 221 68 22 133 88 tfor:TF1302|3end_conserved_hypothetical_protein;_possible_tetracycline_resistance_element_1383836..1383986_POSITIVE 216 73 32 97 62 tfor:TF2140|3end_hypothetical_protein_2316739..2316889_POSITIVE 214 50 2 67 16 tfor:TF0889|3end_conjugative_transposon_protein,_TraO_940078..940228_POSITIVE 213 114 80 128 81 tfor:TF2447|3end_lipoprotein_2624990..2625140_POSITIVE 213 110 77 40 10 tfor:TF0238|3end_outer_membrane_protein_268957..269107_POSITIVE 209 119 71 67 9 tfor:TF2327|3end_conserved_hypothetical_protein;_possible_lipoprotein_2487228..2487378_POSITIVE 208 110 80 128 97 tfor:TF2295|3end_hypothetical_protein_2448717..2448867_POSITIVE 206 66 30 137 108 tfor:TF1839|3end_conserved_hypothetical_protein_1989699..1989849_POSITIVE 203 88 41 142 105 tfor:TF0686|3end_hypothetical_protein_732950..733100_POSITIVE 202 90 42 78 34 tfor:TF2803|3end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_2993467..2993617_POSITIVE 200 87 55 83 47 tfor:TF3159|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_3395611..3395761_POSITIVE 200 88 41 95 49 tfor:TF2587|3end_hypothetical_protein_2752212..2752362_POSITIVE 198 71 31 110 72 tfor:TF2344|3end_ATP/GTP_binding_protein_2508434..2508584_POSITIVE