Origin IGS: gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgatatataattgtaaaggaggcagttcttctattgatcatgcgatgtgatctcagaccttttttgtgagagcttccggaaacaaatagcagtttttgcagttttttgccaactcgacattgcaatttcaaatatcttcgtatctttgccttcgatttttaacaaggc Mask Tandem Repeat Region ================================================ gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Find is-nt database================================================ Query_seq: TF0793:TF0794|TF0793:TF0794:conserved hypothetical protein; possible AAA superfamily ATPase:hypothetical protein:->->:851352..851519 168 gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0793:TF0794|TF0793:TF0794:conserved hypothetical protein; possible AAA superfamily ATPase:hypothetical protein:->->:851352..851519 168 gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0793:TF0794|TF0793:TF0794:conserved hypothetical protein; possible AAA superfamily ATPase:hypothetical protein:->->:851352..851519 168 gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 4 End: 135 ... M L K I E G K D T K I F E I A M S S W Q K T A K T A I C F R K L S Q K R S E I T S H D Q ................................. Protein_Len: 47 Strand: + Start: 26 End: 166 ......................... M R R Y L K L Q C R V G K K L Q K L L F V S G S S H K K G L R S H R M I N R R T A S F T I I Y .. Protein_Len: 40 Strand: - Start: 3 End: 122 .. K N F I S P L S V F I N S I A I D L Q C F V A F V A I Q K R F S E C F L D S I M .............................................. gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca 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================================================ gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0793:TF0794|TF0793:TF0794:conserved hypothetical protein; possible AAA superfamily ATPase:hypothetical protein:->->:851352..851519 168 gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Intra-Species Hit: Count: 1 Min: 1 Max: 168 Len: 168 Subject: tfor_TF0793_TF0794|conserved hypothetical protein; possible AAA superfamily ATPase:hypothetical protein|POSITIVE:POSITIVE|[851352,851519]|168 HSP 1 e-value: 1.0E-90 bit: 333.0 Len: 168 Query Start:1 Query End:168 Subject Strand: POSITIVE Subject Start: 1 Subject End: 168 gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca gccttgttaaaaatcgaaggcaaagatacgaagatatttgaaattgcaatgtcgagttggcaaaaaactgcaaaaactgctatttgtttccggaagctctcacaaaaaaggtctgagatcacatcgcatgatcaatagaagaactgcctcctttacaattatatatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCUUGUUAAAAAUCGAAGGCAAAGAUACGAAGAUAUUUGAAAUUGCAAUGUCGAGUUGGCAAAAAACUGCAAAAACUGCUAUUUGUUUCCGGAAGCUCUCACAAAAAAGGUCUGAGAUCACAUCGCAUGAUCAAUAGAAGAACUGCCUCCUUUACAAUUAUAUAUCA ((((((........).)))))...((((((((....)))).........(((.(((..((((.......(((.....)))..(((((...(....).....)))))...((((((.(((...))).)).))))...........))))..))).)))......)))). (-27.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAUAUAAUUGUAAAGGAGGCAGUUCUUCUAUUGAUCAUGCGAUGUGAUCUCAGACCUUUUUUGUGAGAGCUUCCGGAAACAAAUAGCAGUUUUUGCAGUUUUUUGCCAACUCGACAUUGCAAUUUCAAAUAUCUUCGUAUCUUUGCCUUCGAUUUUUAACAAGGC .(((((..((((((((((..(((((....(((...((((((.....))))))..)))......(((..((((((.(.(....).....).))))))..)))....)))))..)).....))))))))....)))))...........(((((.(........)))))) (-34.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 99 53 194 150 tfor:TF1068|5end_conserved_hypothetical_protein;_possible_N-acetylglucosamine_kinase_1138036..1138266_POSITIVE 298 75 43 135 103 tfor:TF0437|5end_conserved_hypothetical_protein_460923..461153_POSITIVE 294 97 54 198 139 tfor:TF2973|5end_transposase_3179214..3179444_POSITIVE 288 97 54 198 139 tfor:TF1772|5end_ISPg4-related_transposase_(IS5_family)_1908672..1908902_POSITIVE 286 95 53 46 6 tfor:TF0092|5end_outer_membrane_protein_98889..99119_POSITIVE 282 130 82 92 36 tfor:TF2799|5end_RNA_polymerase_ECF-type_sigma_factor_2984385..2984615_POSITIVE 272 49 1 153 108 tfor:TF1963|5end_hypothetical_protein_2113359..2113589_POSITIVE 271 60 13 83 41 tfor:TF2674|5end_conserved_hypothetical_protein;_possible_phosphoesterase_2848176..2848406_POSITIVE 270 60 15 61 7 tfor:TF2845|5end_hypothetical_protein_3034414..3034644_POSITIVE 270 95 54 193 139 tfor:TF0404|5end_conserved_hypothetical_protein_423432..423662_POSITIVE 268 129 84 224 175 tfor:TF2453|5end_glutamate_racemase_2630422..2630652_POSITIVE 267 150 107 49 4 tfor:TF1804|5end_hypothetical_protein_1947101..1947331_POSITIVE 267 96 51 65 14 tfor:TF0851|5end_helicase_SNF2_family_899486..899716_POSITIVE 266 99 54 174 122 tfor:TF0951|5end_D-alanine--D-alanine_ligase_995718..995948_POSITIVE 265 64 21 151 108 tfor:TF2280|5end_hypothetical_protein_2439140..2439370_POSITIVE 264 116 77 186 151 tfor:TF1510|5end_outer_membrane_protein_1619551..1619781_POSITIVE 261 55 16 159 128 tfor:TF0999|5end_hypothetical_protein_1053028..1053258_POSITIVE 261 97 53 54 5 tfor:TF0413|5end_succinyl-diaminopimelate_desuccinylase_430434..430664_POSITIVE 260 149 109 121 87 tfor:TF2109|5end_possible_metallo-beta-lactamase_family_protein_2277942..2278172_POSITIVE 258 97 51 210 166 tfor:TF0786|5end_pyridoxal_phosphate_biosynthetic_protein_838563..838793_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 150 104 64 26 tfor:TF0789|3end_preprotein_translocase,_secDF_family_843670..843820_POSITIVE 274 66 21 77 32 tfor:TF0681|3end_sugar_kinase,_PfkB_family_724209..724359_POSITIVE 271 60 13 99 57 tfor:TF2673|3end_conserved_hypothetical_protein_2848272..2848422_POSITIVE 268 129 84 137 88 tfor:TF2452|3end_outer_membrane_protein,_OmpH_family_2630415..2630565_POSITIVE 265 64 21 118 75 tfor:TF2279|3end_hypothetical_protein_2439187..2439337_POSITIVE 265 100 68 41 7 tfor:TF0112|3end_outer_membrane_protein_123027..123177_POSITIVE 256 60 16 76 17 tfor:TF1049|3end_cobyrinic_acid_a,c-diamide_synthase_1111539..1111689_POSITIVE 253 99 53 128 75 tfor:TF1761|3end_hypothetical_protein_1899579..1899729_POSITIVE 252 116 78 80 31 tfor:TF0508|3end_conserved_hypothetical_protein_535659..535809_POSITIVE 247 62 25 137 105 tfor:TF3030|3end_16S_rRNA_processing_protein_3254296..3254446_POSITIVE 246 92 51 59 17 tfor:TF2034|3end_arabinose-proton_symporter_2194738..2194888_POSITIVE 245 49 19 58 30 tfor:TF2520|3end_conserved_hypothetical_protein_2699824..2699974_POSITIVE 243 100 53 67 19 tfor:TF0548|3end_TPR-repeat-containing_protein_581417..581567_POSITIVE 242 93 55 147 108 tfor:TF1520|3end_transaldolase_1628883..1629033_POSITIVE 240 98 54 68 16 tfor:TF0323|3end_NAD-dependent_epimerase/dehydratase_family_protein_351053..351203_POSITIVE 239 129 83 88 32 tfor:TF3053|3end_conserved_hypothetical_protein_3278889..3279039_POSITIVE 238 97 68 111 85 tfor:TF0495|3end_conserved_hypothetical_protein;_possible_S-layer_related_protein_precursor_522354..522504_POSITIVE 235 103 68 133 101 tfor:TF1774|3end_arylsulfatase_precursor_1912939..1913089_POSITIVE 234 113 78 135 94 tfor:TF0829|3end_conserved_hypothetical_protein_888250..888400_POSITIVE 233 130 87 94 38 tfor:TF0662|3end_hypothetical_protein_708554..708704_POSITIVE