Origin IGS: tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta .........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 taaagccggaacggtaaccaatcgaagataagaaaagggggggggatgtctttcagtggcatctcccctttttttgtgtctggacacgtacacattgagcgagcaatatatcttatgtctttaaggaagttattcaatgtgtccgctcggggttttccgtattttccataaatatcgtacctttgcacgatttaattgcagccgga Mask Tandem Repeat Region ================================================ tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Find is-nt database================================================ Query_seq: TF0748:TF0749|TF0748:TF0749:ATP-dependent protease La:protease II:->->:795496..795701 206 tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0748:TF0749|TF0748:TF0749:ATP-dependent protease La:protease II:->->:795496..795701 206 tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0748:TF0749|TF0748:TF0749:ATP-dependent protease La:protease II:->->:795496..795701 206 tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 16 End: 204 ............... M V Q R Y D I Y G K Y G K P R A D T L N N F L K D I R Y I A R S M C T C P D T K K G E M P L K D I P P P F L I F D W L P .. Protein_Len: 37 Strand: + Start: 96 End: 206 ............................................................................................... M Y C S L N V Y V S R H K K R G D A T E R H P P P F S Y L R L V T V P A L Protein_Len: 47 Strand: - Start: 39 End: 179 ...................................... P F Y P F G R A S V N F L K R L S M L Y I A R E I H V H G S V F F P S I G S F S M G G G K R M ........................... Protein_Len: 33 Strand: - Start: 1 End: 99 G A A I L D H L P V I N I S F V S F G S R V C Q I V E K F V Y S M ........................................................................................................... tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta 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================================================ tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.3 Tail_Score: -5.76633 Start: 139 End: 167 Full_Region: aagataagaaaaggg ggggggatgtc tttcagt ggcatctcccc tttttttgtgtctgg ..........................................................................................................................................ggggggatgtctttcagtggcatctcccc....................................... Find igs database================================================ Query_seq: TF0748:TF0749|TF0748:TF0749:ATP-dependent protease La:protease II:->->:795496..795701 206 tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Intra-Species Hit: Count: 1 Min: 1 Max: 206 Len: 206 Subject: tfor_TF0748_TF0749|ATP-dependent protease La:protease II|POSITIVE:POSITIVE|[795496,795701]|206 HSP 1 e-value: 1.0E-84 bit: 313.0 Len: 206 Query Start:1 Query End:206 Subject Strand: POSITIVE Subject Start: 1 Subject End: 206 tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacnnnnnnnggggagatgccactgaaagacatnnnnnnnnnttttcttatcttcgattggttaccgttccggcttta tccggctgcaattaaatcgtgcaaaggtacgatatttatggaaaatacggaaaaccccgagcggacacattgaataacttccttaaagacataagatatattgctcgctcaatgtgtacgtgtccagacacaaaaaaaggggagatgccactgaaagacatcccccccccttttcttatcttcgattggttaccgttccggcttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCGGCUGCAAUUAAAUCGUGCAAAGGUACGAUAUUUAUGGAAAAUACGGAAAACCCCGAGCGGACACAUUGAAUAACUUCCUUAAAGACAUAAGAUAUAUUGCUCGCUCAAUGUGUACGUGUCCAGACACAAAAAAAGGGGAGAUGCCACUGAAAGACAUCCCCCCCCCUUUUCUUAUCUUCGAUUGGUUACCGUUCCGGCUUUA .((((..........(((((((....))))))).............((((..((((.(((..((((((.........(((.....))).......((((((((......))))))))..)))))).........((((((((.((((.(.......).))))....)))))))).......)))...)))).)))).))))..... (-49.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGCCGGAACGGUAACCAAUCGAAGAUAAGAAAAGGGGGGGGGAUGUCUUUCAGUGGCAUCUCCCCUUUUUUUGUGUCUGGACACGUACACAUUGAGCGAGCAAUAUAUCUUAUGUCUUUAAGGAAGUUAUUCAAUGUGUCCGCUCGGGGUUUUCCGUAUUUUCCAUAAAUAUCGUACCUUUGCACGAUUUAAUUGCAGCCGGA .....((((.((((.((((...(((.((((..((((((((((((((((((.......)))))))))))))))))).)))).((((((((....((((......))))...(((((......)))))..........))))))))..))).))))..))))......((.....(((((........))))).....))...)))). (-66.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 365 200 156 89 42 tfor:TF1762|5end_hypothetical_protein_1899320..1899550_POSITIVE 365 200 156 74 27 tfor:TF1761|5end_hypothetical_protein_1899305..1899535_POSITIVE 339 190 143 212 161 tfor:TF0127|5end_conserved_hypothetical_protein_138026..138256_POSITIVE 334 65 23 219 176 tfor:TF2707|5end_glutamine_amidotransferase_2878305..2878535_POSITIVE 325 174 133 156 112 tfor:TF0758|5end_peptidyl-tRNA_hydrolase_805307..805537_POSITIVE 317 178 138 139 107 tfor:TF1470|5end_phosphohydrolase,_Icc_family_1563144..1563374_POSITIVE 315 176 132 230 191 tfor:TF1260|5end_chaperone_protein_DnaJ_1345325..1345555_POSITIVE 313 175 142 202 170 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 310 169 123 88 31 tfor:TF0864|5end_O-succinylbenzoate--CoA_ligase_914570..914800_POSITIVE 309 200 151 155 108 tfor:TF1462|5end_erythronate-4-phosphate_dehydrogenase_1552184..1552414_POSITIVE 306 175 150 219 185 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 305 197 151 159 97 tfor:TF2171|5end_hypothetical_protein_2345485..2345715_POSITIVE 305 197 151 159 97 tfor:TF2166|5end_hypothetical_protein_2342115..2342345_POSITIVE 300 199 164 131 95 tfor:TF2951|5end_O-succinylbenzoic_acid--CoA_ligase_3158496..3158726_POSITIVE 298 70 21 68 7 tfor:TF2529|5end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_2710670..2710900_POSITIVE 295 199 159 76 26 tfor:TF3116|5end_conserved_hypothetical_protein_3352136..3352366_POSITIVE 293 200 159 133 77 tfor:TF0328|5end_conserved_hypothetical_protein_354182..354412_POSITIVE 292 175 143 132 99 tfor:TF2172|5end_hypothetical_protein_2345822..2346052_POSITIVE 292 175 143 126 93 tfor:TF2173|5end_hypothetical_protein_2345816..2346046_POSITIVE 292 175 143 126 93 tfor:TF0366|5end_hypothetical_protein_383564..383794_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 365 200 156 102 55 tfor:TF1760|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1899413..1899563_POSITIVE 325 174 133 62 18 tfor:TF0757|3end_50S_ribosomal_protein_L25;_general_stress_protein_805293..805443_POSITIVE 323 108 61 105 66 tfor:TF2613|3end_conserved_hypothetical_protein_2789798..2789948_POSITIVE 313 31 3 136 111 tfor:TF0644|3end_pyruvate_phosphate_dikinase_688581..688731_POSITIVE 309 200 151 144 97 tfor:TF1461|3end_DNA-damage-inducible_protein_F_1552253..1552403_POSITIVE 300 199 164 104 68 tfor:TF2950|3end_chloromuconate_cycloisomerase_3158549..3158699_POSITIVE 299 198 161 110 63 tfor:TF1785|3end_histidine_ammonia-lyase_1926070..1926220_POSITIVE 298 70 21 67 6 tfor:TF2527|3end_RNA_polymerase_ECF-type_sigma_factor_2710749..2710899_POSITIVE 288 189 158 36 8 tfor:TF1169|3end_lipoprotein_ABC_transporter,_permease_component_1251573..1251723_POSITIVE 285 68 22 135 89 tfor:TF2238|3end_conserved_hypothetical_protein_2414588..2414738_POSITIVE 285 167 137 76 40 tfor:TF0675|3end_conserved_hypothetical_protein_719019..719169_POSITIVE 283 150 101 151 106 tfor:TF1280|3end_electron_transfer_flavoprotein,_beta_subunit_1365257..1365407_POSITIVE 282 169 129 62 24 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 279 200 162 128 76 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 278 177 136 75 40 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 278 78 35 56 4 tfor:TF0137|3end_conserved_hypothetical_protein_147240..147390_POSITIVE 276 200 156 49 5 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 275 200 154 45 3 tfor:TF1915|3end_NAD-dependent_protein_deacetylase,_SIR2_family_2068489..2068639_POSITIVE 274 200 163 70 30 tfor:TF2860|3end_hypothetical_protein_3051680..3051830_POSITIVE 274 177 136 75 41 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE