Origin IGS: tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg .........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 cgagtcatcattttcaagacgtgcaaagttaatgattaatttggaaacgtccgctttttcgtaaccataagcagatgtttaaaaggagttgccgccttcttaccgcatgtctcaagacacctgtcctaatttctgctgttgaaaaacatgcggatcgttttctttttccaataatttgccgtaccttcgtgtcccgta Mask Tandem Repeat Region ================================================ tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Find is-nt database================================================ Query_seq: TF2530:TF2531|TF2530:TF2531:conserved hypothetical protein:possible dipeptidyl-peptidase III:->->:2712987..2713184 198 tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2530:TF2531|TF2530:TF2531:conserved hypothetical protein:possible dipeptidyl-peptidase III:->->:2712987..2713184 198 tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2530:TF2531|TF2530:TF2531:conserved hypothetical protein:possible dipeptidyl-peptidase III:->->:2712987..2713184 198 tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 24 End: 167 ....................... M I G K R K R S A C F S T A E I R T G V L R H A V R R R Q L L L N I C L W L R K S G R F Q I N H ............................... Protein_Len: 53 Strand: - Start: 2 End: 160 . R S V F T R C I I P F L F R D A H K E V A S I L V P T K L C A T L L R C S R K F M Q K H N R F L P R K W M ...................................... tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg 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================================================ tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2530:TF2531|TF2530:TF2531:conserved hypothetical protein:possible dipeptidyl-peptidase III:->->:2712987..2713184 198 tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Intra-Species Hit: Count: 1 Min: 1 Max: 198 Len: 198 Subject: tfor_TF2530_TF2531|conserved hypothetical protein:possible dipeptidyl-peptidase III|POSITIVE:POSITIVE|[2712987,2713184]|198 HSP 1 e-value: 1.0E-108 bit: 392.0 Len: 198 Query Start:1 Query End:198 Subject Strand: POSITIVE Subject Start: 1 Subject End: 198 tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg tacgggacacgaaggtacggcaaattattggaaaaagaaaacgatccgcatgtttttcaacagcagaaattaggacaggtgtcttgagacatgcggtaagaaggcggcaactccttttaaacatctgcttatggttacgaaaaagcggacgtttccaaattaatcattaactttgcacgtcttgaaaatgatgactcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACGGGACACGAAGGUACGGCAAAUUAUUGGAAAAAGAAAACGAUCCGCAUGUUUUUCAACAGCAGAAAUUAGGACAGGUGUCUUGAGACAUGCGGUAAGAAGGCGGCAACUCCUUUUAAACAUCUGCUUAUGGUUACGAAAAAGCGGACGUUUCCAAAUUAAUCAUUAACUUUGCACGUCUUGAAAAUGAUGACUCG ..((((.((((.(((.(((((((((((.(((.......(((((.(((((...(((((((((((((((..(((((((....)))))))...........((((((.(....).)))))).....))))))....)))..)))))))))))))))).........))).))).))))).)))))).....)).)).)))) (-49.29) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAGUCAUCAUUUUCAAGACGUGCAAAGUUAAUGAUUAAUUUGGAAACGUCCGCUUUUUCGUAACCAUAAGCAGAUGUUUAAAAGGAGUUGCCGCCUUCUUACCGCAUGUCUCAAGACACCUGUCCUAAUUUCUGCUGUUGAAAAACAUGCGGAUCGUUUUCUUUUUCCAAUAAUUUGCCGUACCUUCGUGUCCCGUA ((.(.(((..........(((.(((((.(((.((...((...(((((((((((((((((((........((((((.(((....(((...(((.(........).))).(((....))).))).....))).))))))..)))))))...))))).)))))))..))..)).)))))))))))......))).).)).. (-42.99) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 369 148 103 182 135 tfor:TF0473|5end_cation_or_acridine_efflux_membrane-fusion_protein_491047..491277_POSITIVE 357 156 111 192 155 tfor:TF2321|5end_hypothetical_protein_2482347..2482577_POSITIVE 327 165 122 151 107 tfor:TF0941|5end_transposase_fragment_981973..982203_POSITIVE 324 108 63 186 144 tfor:TF1645|5end_conserved_hypothetical_protein_1755427..1755657_POSITIVE 322 130 87 193 153 tfor:TF1465|5end_modulator_of_DNA_gyrase_1554148..1554378_POSITIVE 320 111 73 220 185 tfor:TF0441|5end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_3_464614..464844_POSITIVE 319 110 61 193 138 tfor:TF3098|5end_conserved_hypothetical_protein_3329913..3330143_POSITIVE 318 107 62 148 96 tfor:TF0361|5end_hypothetical_protein_379458..379688_POSITIVE 315 138 94 98 40 tfor:TF1417|5end_conserved_hypothetical_protein_1499544..1499774_POSITIVE 310 140 91 174 114 tfor:TF2556|5end_conserved_hypothetical_protein_2736131..2736361_POSITIVE 310 140 91 69 9 tfor:TF2554|5end_50S_ribosomal_protein_L23_2736026..2736256_POSITIVE 309 109 63 174 133 tfor:TF2252|5end_transfer_region-related_protein,_TraF_2424621..2424851_POSITIVE 309 116 74 45 2 tfor:TF0249|5end_3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl_carrier_protein)_dehydratase_278808..279038_POSITIVE 308 106 64 204 153 tfor:TF1915|5end_NAD-dependent_protein_deacetylase,_SIR2_family_2067720..2067950_POSITIVE 301 108 62 228 185 tfor:TF2130|5end_conserved_hypothetical_protein;_possible_permease_2306486..2306716_POSITIVE 301 118 72 160 125 tfor:TF1339|5end_aspartate_1-decarboxylase_1420908..1421138_POSITIVE 301 106 65 188 146 tfor:TF0559|5end_methanol_dehydrogenase_regulator,_MoxR-like;_magnesium_chelatase,_subunit_I_591015..591245_POSITIVE 300 115 74 228 182 tfor:TF2795|5end_hypothetical_protein_2980602..2980832_POSITIVE 298 107 63 135 89 tfor:TF3067|5end_conserved_hypothetical_protein_3292432..3292662_POSITIVE 298 157 111 57 1 tfor:TF0676|5end_methyltransferase_719027..719257_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 369 148 103 112 65 tfor:TF0472|3end_multidrug_resistance_protein,_AcrB/AcrD/AcrF_family_(cation_efflux_pump)_491057..491207_POSITIVE 366 119 75 63 21 tfor:TF3104|3end_outer_membrane_protein,_TonB_dependent_receptor_3337450..3337600_POSITIVE 364 113 71 138 97 tfor:TF0815|3end_conserved_hypothetical_protein_873974..874124_POSITIVE 327 165 122 138 94 tfor:TF0940|3end_transposase_982040..982190_POSITIVE 322 130 87 81 41 tfor:TF1464|3end_conserved_hypothetical_protein_1554116..1554266_POSITIVE 318 107 62 148 96 tfor:TF0360|3end_hypothetical_protein_379538..379688_POSITIVE 315 109 62 114 48 tfor:TF3000|3end_hypothetical_protein_3216740..3216890_POSITIVE 309 116 74 52 9 tfor:TF0248|3end_hypothetical_protein_278895..279045_POSITIVE 308 106 64 60 9 tfor:TF1914|3end_conserved_hypothetical_protein_2067656..2067806_POSITIVE 303 139 94 59 9 tfor:TF2847|3end_hypothetical_protein_3034985..3035135_POSITIVE 301 118 72 87 52 tfor:TF1337|3end_multidrug_efflux_pump,_BexA_1420915..1421065_POSITIVE 300 108 61 89 30 tfor:TF0766|3end_hypothetical_protein_812256..812406_POSITIVE 295 50 3 44 6 tfor:TF0991|3end_probable_NAD(FAD)-dependent_dehydrogenase_1048334..1048484_POSITIVE 293 120 72 76 34 tfor:TF0355|3end_transposase_element_373487..373637_POSITIVE 289 108 62 63 2 tfor:TF1936|3end_conserved_hypothetical_protein_2084549..2084699_POSITIVE 288 85 41 143 98 tfor:TF2153|3end_6-phosphofructokinase_2329172..2329322_POSITIVE 288 127 83 64 9 tfor:TF1321|3end_conserved_hypothetical_protein_1401914..1402064_POSITIVE 287 108 62 132 81 tfor:TF1069|3end_glucokinase_regulatory_protein,_sugar_phosphate_isomerase_domain_1139794..1139944_POSITIVE 285 107 62 82 38 tfor:TF0962|3end_possible_amidohydrolase_1012458..1012608_POSITIVE 284 96 65 146 113 tfor:TF0558|3end_conserved_hypothetical_protein_591062..591212_POSITIVE