Origin IGS: tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt .........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 aagtcgtaaatcctctcctaaaaaacaaattttatcgaagaataattttttcttccaaataccattatgaggtgctatatcccccgttgtttctacataaaaaactattatactgccgtttgagaaccatcgctgtccgatttaagcaagtcgggagcgataaaaaatgtccgatttgagcaggtttttgtccgatttgagcaagtccgatcgcccgaacagaggctaaatttgcaacagaaaaaaaagattccggcata Mask Tandem Repeat Region ================================================ tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Find is-nt database================================================ Query_seq: TF2923:TF2924|TF2923:TF2924:hypothetical protein:DNA-binding response regulator/sensor histidine kinase:->->:3122464..3122723 260 tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2923:TF2924|TF2923:TF2924:hypothetical protein:DNA-binding response regulator/sensor histidine kinase:->->:3122464..3122723 260 tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2923:TF2924|TF2923:TF2924:hypothetical protein:DNA-binding response regulator/sensor histidine kinase:->->:3122464..3122723 260 tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 10 End: 150 ......... M F F F C C K F S L C S G D R T C S N R T K T C S N R T F F I A P D L L K S D S D G S Q T A V .............................................................................................................. Protein_Len: 60 Strand: + Start: 2 End: 193 . M P E S F F S V A N L A S V R A I G L A Q I G Q K P A Q I G H F L S L P T C L N R T A M V L K R Q Y N S F L C R N N G G ................................................................... Protein_Len: 47 Strand: + Start: 120 End: 260 ....................................................................................................................... M G Q R W F S N G S I I V F Y V E T T G D I A P H N G I W K K K L F F D K I C F L G E D L R L Protein_Len: 45 Strand: - Start: 85 End: 219 .................................................................................... I P C K K D S G V Q K F R V A I T R L R C Y L L K K H L F L P P Y L V E Y H Y K S S F I M ......................................... Protein_Len: 42 Strand: - Start: 3 End: 128 .. A P I K K K Q Q L N L R Q E P S R V Q E F R V F V Q E F R V N K I A G S K S L D S M .................................................................................................................................... tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt 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================================================ tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2923:TF2924|TF2923:TF2924:hypothetical protein:DNA-binding response regulator/sensor histidine kinase:->->:3122464..3122723 260 tatgccggaatcttttttttctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Intra-Species Hit: Count: 1 Min: 21 Max: 260 Len: 240 Subject: tfor_TF2923_TF2924|hypothetical protein:DNA-binding response regulator/sensor histidine kinase|POSITIVE:POSITIVE|[3122464,3122723]|260 HSP 1 e-value: 1.0E-133 bit: 476.0 Len: 240 Query Start:21 Query End:260 Subject Strand: POSITIVE Subject Start: 21 Subject End: 260 ....................ctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt ....................ctgttgcaaatttagcctctgttcgggcgatcggacttgctcaaatcggacaaaaacctgctcaaatcggacattttttatcgctcccgacttgcttaaatcggacagcgatggttctcaaacggcagtataatagttttttatgtagaaacaacgggggatatagcacctcataatggtatttggaagaaaaaattattcttcgataaaatttgttttttaggagaggatttacgactt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUUGCAAAUUUAGCCUCUGUUCGGGCGAUCGGACUUGCUCAAAUCGGACAAAAACCUGCUCAAAUCGGACAUUUUUUAUCGCUCCCGACUUGCUUAAAUCGGACAGCGAUGGUUCUCAAACGGCAGUAUAAUAGUUUUUUAUGUAGAAACAACGGGGGAUAUAGCACCUCAUAAUGGUAUUUGGAAGAAAAAAUUAUUCUUCGAUAAAAUUUGUUUUUUAGGAGAGGAUUUACGACUU ..((((...........((((((.((((((......)))))).)).))))......(((.(((.....(((((..(((((((.((((((..(((((......((((.......))))......))))).......((((((.....))))))..)))))).......(((.......))).....((((((.......)))))))))))))..))))).....)))))).....)))).. (-53.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUCGUAAAUCCUCUCCUAAAAAACAAAUUUUAUCGAAGAAUAAUUUUUUCUUCCAAAUACCAUUAUGAGGUGCUAUAUCCCCCGUUGUUUCUACAUAAAAAACUAUUAUACUGCCGUUUGAGAACCAUCGCUGUCCGAUUUAAGCAAGUCGGGAGCGAUAAAAAAUGUCCGAUUUGAGCAGGUUUUUGUCCGAUUUGAGCAAGUCCGAUCGCCCGAACAGAGGCUAAAUUUGCAACAG ..((.((((((((((.......((((((........((((((.......))))))....((((.......))))............)))))).........................(((((......((((((.((((((((....)))))))))))))).......(((.((((((..((((((.......))))))..)))))).)))....))))).))))....)))))).)).. (-53.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 50 1 48 5 tfor:TF2747|5end_heat_shock_protein,_HSP90_family_2928279..2928509_POSITIVE 374 48 2 224 167 tfor:TF2307|5end_two-component_system_sensor_histidine_kinase/response_2462618..2462848_POSITIVE 372 60 13 51 1 tfor:TF2391|5end_conserved_hypothetical_protein_2562128..2562358_POSITIVE 369 130 81 225 167 tfor:TF1733|5end_conserved_hypothetical_protein_1856015..1856245_POSITIVE 369 77 41 132 95 tfor:TF0531|5end_hypothetical_protein_557063..557293_POSITIVE 364 130 81 42 3 tfor:TF1936|5end_conserved_hypothetical_protein_2083984..2084214_POSITIVE 359 60 13 77 27 tfor:TF0690|5end_preprotein_translocase_subunit_735243..735473_POSITIVE 356 60 11 221 171 tfor:TF1924|5end_prenyltransferase,_UbiA_family_2072857..2073087_POSITIVE 355 49 1 84 25 tfor:TF0789|5end_preprotein_translocase,_secDF_family_841293..841523_POSITIVE 353 129 81 185 135 tfor:TF3039|5end_ABC_transporter,_ATP-binding_protein_3265731..3265961_POSITIVE 342 50 1 144 79 tfor:TF2189|5end_conserved_hypothetical_protein_2363455..2363685_POSITIVE 337 48 6 227 174 tfor:TF1801|5end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_1944213..1944443_POSITIVE 335 129 81 158 98 tfor:TF1740|5end_hypothetical_protein_1868645..1868875_POSITIVE 335 70 22 195 145 tfor:TF1048|5end_permease_1109241..1109471_POSITIVE 333 58 19 55 2 tfor:TF2123|5end_conserved_hypothetical_protein;_TPR-repeat_protein_2297268..2297498_POSITIVE 332 50 1 203 145 tfor:TF2332|5end_signal_peptidase_I_2491694..2491924_POSITIVE 329 69 21 226 175 tfor:TF2454|5end_D-alanyl-D-alanine_dipeptidase_2631259..2631489_POSITIVE 328 50 2 209 168 tfor:TF2329|5end_conserved_hypothetical_protein_2488324..2488554_POSITIVE 325 110 67 150 101 tfor:TF1317|5end_hypothetical_protein_1391378..1391608_POSITIVE 324 60 15 227 163 tfor:TF0971|5end_conserved_hypothetical_protein_1021355..1021585_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 369 130 81 109 51 tfor:TF1732|3end_conserved_hypothetical_protein_1855979..1856129_POSITIVE 364 130 81 57 18 tfor:TF1934|3end_hypothetical_protein_2084079..2084229_POSITIVE 355 59 14 77 32 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 355 49 1 81 22 tfor:TF0788|3end_protein-export_membrane_protein_841370..841520_POSITIVE 342 50 1 144 79 tfor:TF2188|3end_conserved_hypothetical_protein_2363535..2363685_POSITIVE 330 51 16 147 113 tfor:TF2887|3end_phosphomannomutase/phosphoglucomutase_3077792..3077942_POSITIVE 328 108 67 145 107 tfor:TF3038|3end_conserved_hypothetical_protein_3265799..3265949_POSITIVE 314 60 15 118 60 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 314 60 15 136 78 tfor:TF1659|3end_hypothetical_protein_1775209..1775359_POSITIVE 311 59 15 151 94 tfor:TF0538|3end_hypothetical_protein_567135..567285_POSITIVE 311 128 81 72 20 tfor:TF0148|3end_conserved_hypothetical_protein_160157..160307_POSITIVE 310 59 15 151 94 tfor:TF1845|3end_hypothetical_protein_1997005..1997155_POSITIVE 309 60 15 136 78 tfor:TF1187|3end_hypothetical_protein_1269872..1270022_POSITIVE 309 60 15 79 21 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 308 54 14 56 3 tfor:TF2087|3end_conserved_hypothetical_protein_2257694..2257844_POSITIVE 306 50 15 146 113 tfor:TF2674|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2848777..2848927_POSITIVE 305 48 4 118 70 tfor:TF0279|3end_conserved_hypothetical_protein_308679..308829_POSITIVE 304 110 61 51 1 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 304 50 2 143 105 tfor:TF2833|3end_lipid_A_disaccharide_synthase_3025183..3025333_POSITIVE 302 76 31 46 2 tfor:TF3147|3end_adenylate_kinase_3383704..3383854_POSITIVE