Origin IGS: taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattacaaattacgattaccgtagggtaagggccgaggtgaaggattatttcacacgttcttacaccgaaagagggtgcacccgcaacattgcgtttgagcacaccctctttgcatctttattgtatttttcttttcctctcccggcttttta Mask Tandem Repeat Region ================================================ taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Find is-nt database================================================ Query_seq: TF2592:TF2593|TF2592:TF2593:conserved hypothetical protein:amino acid transport protein:->->:2762868..2763021 154 taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2592:TF2593|TF2592:TF2593:conserved hypothetical protein:amino acid transport protein:->->:2762868..2763021 154 taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2592:TF2593|TF2592:TF2593:conserved hypothetical protein:amino acid transport protein:->->:2762868..2763021 154 taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 51 End: 152 .................................................. M L K R N V A G A P S F G V R T C E I I L H L G P Y P T V I V I C N .. Protein_Len: 50 Strand: - Start: 3 End: 152 .. F A P L P F S F Y L L S A F L T H E F A I N R T C G R E T Y S R T F Y D K V E A R V R R Y D Y N T M .. Protein_Len: 36 Strand: - Start: 2 End: 109 . F L R S L F L F I C Y L H L S P T S L R L T A P A G E K P T L V H S I M ............................................. taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta 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================================================ taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2592:TF2593|TF2592:TF2593:conserved hypothetical protein:amino acid transport protein:->->:2762868..2763021 154 taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Intra-Species Hit: Count: 1 Min: 1 Max: 154 Len: 154 Subject: tfor_TF2592_TF2593|conserved hypothetical protein:amino acid transport protein|POSITIVE:POSITIVE|[2762868,2763021]|154 HSP 1 e-value: 2.0E-82 bit: 305.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta taaaaagccgggagaggaaaagaaaaatacaataaagatgcaaagagggtgtgctcaaacgcaatgttgcgggtgcaccctctttcggtgtaagaacgtgtgaaataatccttcacctcggcccttaccctacggtaatcgtaatttgtaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAGCCGGGAGAGGAAAAGAAAAAUACAAUAAAGAUGCAAAGAGGGUGUGCUCAAACGCAAUGUUGCGGGUGCACCCUCUUUCGGUGUAAGAACGUGUGAAAUAAUCCUUCACCUCGGCCCUUACCCUACGGUAAUCGUAAUUUGUAAUUA ......((((((.(((((........((((.......((((.(((((((((..(((.(((.....)))..)))..)))))))))...))))......)))).......)))))...))))))..(((((....)))))................ (-45.98) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUACAAAUUACGAUUACCGUAGGGUAAGGGCCGAGGUGAAGGAUUAUUUCACACGUUCUUACACCGAAAGAGGGUGCACCCGCAACAUUGCGUUUGAGCACACCCUCUUUGCAUCUUUAUUGUAUUUUUCUUUUCCUCUCCCGGCUUUUUA ...((((...(((((.....))))).)))).(((((.((((((((((..........)))))).)))).((((((((((((..((((....))))..))....))))))))))...............................)))))..... (-42.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 579 90 43 168 119 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 577 90 42 171 118 tfor:TF0792|5end_pyruvate_ferredoxin;_flavodoxin_oxidoreductase_846454..846684_POSITIVE 518 90 45 177 132 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 513 85 42 228 186 tfor:TF0184|5end_dihydroneopterin_aldolase_195629..195859_POSITIVE 486 79 38 159 118 tfor:TF0702|5end_possible_peptidyl-prolyl_isomerase_744977..745207_POSITIVE 480 90 43 163 122 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 468 79 35 151 108 tfor:TF1024|5end_50S_ribosomal_protein_L19_1081948..1082178_POSITIVE 464 85 45 200 160 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 462 87 43 166 130 tfor:TF2806|5end_conserved_hypothetical_protein_2994475..2994705_POSITIVE 420 88 45 231 191 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 410 84 42 76 35 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 400 85 43 202 161 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 397 100 51 99 41 tfor:TF0748|5end_ATP-dependent_protease_La_792890..793120_POSITIVE 396 85 43 214 173 tfor:TF1505|5end_conserved_hypothetical_protein_1610773..1611003_POSITIVE 395 75 35 93 42 tfor:TF1268|5end_conserved_hypothetical_protein_1354085..1354315_POSITIVE 393 120 71 160 110 tfor:TF0565|5end_hypothetical_protein_597765..597995_POSITIVE 388 85 45 157 118 tfor:TF1284|5end_glyceraldehyde_3-phosphate_dehydrogenase_1367939..1368169_POSITIVE 388 82 44 167 131 tfor:TF0180|5end_carboxynorspermidine_decarboxylase_191267..191497_POSITIVE 387 85 44 164 124 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 385 90 41 181 120 tfor:TF1536|5end_hypothetical_protein_1643245..1643475_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 513 85 42 47 5 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 483 85 42 49 6 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 464 85 45 61 21 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 462 87 43 60 24 tfor:TF2804|3end_conserved_hypothetical_protein_2994449..2994599_POSITIVE 439 88 42 63 15 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 438 82 42 49 10 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 420 88 45 68 28 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 410 84 42 63 22 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 400 85 43 56 15 tfor:TF2319|3end_acyl_carrier_protein_2476588..2476738_POSITIVE 395 75 35 93 42 tfor:TF1266|3end_conserved_hypothetical_protein_1354165..1354315_POSITIVE 393 120 71 65 15 tfor:TF0564|3end_conserved_hypothetical_protein_597750..597900_POSITIVE 390 85 45 113 74 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 372 88 44 144 84 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 370 89 44 69 22 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 364 104 61 78 27 tfor:TF1497|3end_GTP-binding_protein,_Era/ThdF_family_1597519..1597669_POSITIVE 343 90 44 66 7 tfor:TF1585|3end_hypothetical_protein_1690610..1690760_POSITIVE 341 88 47 145 93 tfor:TF0678|3end_hypothetical_protein_721335..721485_POSITIVE 335 90 47 77 31 tfor:TF1558|3end_possible_heme_biosynthesis_protein_1665959..1666109_POSITIVE 328 89 43 75 22 tfor:TF0105|3end_DNA-binding_stress_protein,_Dps_family_113907..114057_POSITIVE 326 90 41 83 31 tfor:TF0896|3end_hypothetical_protein_945213..945363_POSITIVE