Origin IGS: aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac .........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 gtgctcaattcttagcttgcccgaaaaacagcgccttacccgataaatggagagtctgacagtttctccggcgtatttgttctatttgtggcaaagataagctattttttgttttctgttttgttttgcagggatttattgagatatacacatttataaatgctcttttttacgtttttcgtttccgtaaaccattaaggatttaaaagaaaaatgttatttttgtacccggaacatacaataaataaatgaatcacaagattt Mask Tandem Repeat Region ================================================ aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Find is-nt database================================================ Query_seq: TF1573:TF1574|TF1573:TF1574:ATP synthase, subunit E:two-component system response regulator:->->:1681683..1681946 264 aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1573:TF1574|TF1573:TF1574:ATP synthase, subunit E:two-component system response regulator:->->:1681683..1681946 264 aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1573:TF1574|TF1573:TF1574:ATP synthase, subunit E:two-component system response regulator:->->:1681683..1681946 264 aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 108 End: 257 ........................................................................................................... M N V Y I S I N P C K T K Q K T K N S L S L P Q I E Q I R R R N C Q T L H L S G K A L F F G Q A K N ....... Protein_Len: 38 Strand: - Start: 109 End: 222 ............................................................................................................ L H T Y R L L D R C F L V S F L F Y S I K A V F L V F V G S F S D S E G N M .......................................... Protein_Len: 43 Strand: - Start: 62 End: 190 ............................................................. I R L P K R F R F V Y F L A N I F T Y I E I F G Q L V F C F V F F L K D K G C I S C M .......................................................................... aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac 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================================================ aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1573:TF1574|TF1573:TF1574:ATP synthase, subunit E:two-component system response regulator:->->:1681683..1681946 264 aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgcaaaacaaaacagaaaacaaaaaatagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Intra-Species Hit: Count: 1 Min: 1 Max: 264 Len: 264 Subject: tfor_TF1573_TF1574|ATP synthase, subunit E:two-component system response regulator|POSITIVE:POSITIVE|[1681683,1681946]|264 HSP 1 e-value: 6.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgc............................................................................................................................... aaatcttgtgattcatttatttattgtatgttccgggtacaaaaataacatttttcttttaaatccttaatggtttacggaaacgaaaaacgtaaaaaagagcatttataaatgtgtatatctcaataaatccctgc............................................................................................................................... HSP 2 e-value: 3.0E-52 bit: 206.0 Len: 104 Query Start:161 Query End:264 Subject Strand: POSITIVE Subject Start: 161 Subject End: 264 ................................................................................................................................................................tagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac ................................................................................................................................................................tagcttatctttgccacaaatagaacaaatacgccggagaaactgtcagactctccatttatcgggtaaggcgctgtttttcgggcaagctaagaattgagcac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUCUUGUGAUUCAUUUAUUUAUUGUAUGUUCCGGGUACAAAAAUAACAUUUUUCUUUUAAAUCCUUAAUGGUUUACGGAAACGAAAAACGUAAAAAAGAGCAUUUAUAAAUGUGUAUAUCUCAAUAAAUCCCUGCAAAACAAAACAGAAAACAAAAAAUAGCUUAUCUUUGCCACAAAUAGAACAAAUACGCCGGAGAAACUGUCAGACUCUCCAUUUAUCGGGUAAGGCGCUGUUUUUCGGGCAAGCUAAGAAUUGAGCAC .....(((.(((..((.(((((((...((((((....(((...................((((((......))))))((....))......))).....))))))..))))))).))..))).))).......(((..........))).............(((((((((.((..(.....).........(((.(((((((((((..((((..........))))..))))..))))))).)))..)).))))..))))).. (-48.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGCUCAAUUCUUAGCUUGCCCGAAAAACAGCGCCUUACCCGAUAAAUGGAGAGUCUGACAGUUUCUCCGGCGUAUUUGUUCUAUUUGUGGCAAAGAUAAGCUAUUUUUUGUUUUCUGUUUUGUUUUGCAGGGAUUUAUUGAGAUAUACACAUUUAUAAAUGCUCUUUUUUACGUUUUUCGUUUCCGUAAACCAUUAAGGAUUUAAAAGAAAAAUGUUAUUUUUGUACCCGGAACAUACAAUAAAUAAAUGAAUCACAAGAUUU (((.(((...((((..(((((((((.(((((((((.............((((((.(.....).)))))))))))...))))...)))).)))))...)))).(((((.((((....(((((((...(((((((((.....(((.((((......))))....)))......(((((((((...(((.(((....))).))).......))))))))).)))))))))..))))))).)))).)))))..)))..)))....... (-52.11) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 240 192 193 143 tfor:TF0431|5end_hypothetical_protein_452178..452408_POSITIVE 403 240 192 178 128 tfor:TF0430|5end_hypothetical_protein_452163..452393_POSITIVE 359 259 211 100 41 tfor:TF1710|5end_possible_cell_filamentation_protein_1829679..1829909_POSITIVE 354 235 192 218 167 tfor:TF2390|5end_conserved_hypothetical_protein_2560509..2560739_POSITIVE 350 250 206 131 79 tfor:TF1040|5end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_1101253..1101483_POSITIVE 346 237 196 48 3 tfor:TF0372|5end_transcriptional_regulator_390538..390768_POSITIVE 342 247 215 57 22 tfor:TF1968|5end_conserved_hypothetical_protein_2115415..2115645_POSITIVE 338 260 212 73 25 tfor:TF0677|5end_ATP-binding_protein,_Mrp/Nbp35_family,_involved_in_chromosome_partitioning_719799..720029_POSITIVE 330 250 208 117 74 tfor:TF0748|5end_ATP-dependent_protease_La_792890..793120_POSITIVE 328 238 191 216 164 tfor:TF1681|5end_dTDP-4-keto-L-rhamnose_reductase_1794904..1795134_POSITIVE 324 235 192 89 48 tfor:TF2215|5end_conserved_hypothetical_protein_2387501..2387731_POSITIVE 321 247 207 87 41 tfor:TF0902|5end_methyltransferase_947237..947467_POSITIVE 320 234 192 56 1 tfor:TF2033|5end_conserved_hypothetical_protein_2191529..2191759_POSITIVE 319 238 191 65 12 tfor:TF2278|5end_conserved_hypothetical_protein_2438662..2438892_POSITIVE 317 250 211 181 142 tfor:TF3119|5end_conserved_hypothetical_protein_3352723..3352953_POSITIVE 312 236 191 41 3 tfor:TF2759|5end_xylose_repressor,_ROK_family_2943568..2943798_POSITIVE 310 240 192 92 31 tfor:TF0847|5end_hypothetical_protein_897633..897863_POSITIVE 308 236 193 69 15 tfor:TF1472|5end_acyl-ACP_thioesterase_1565475..1565705_POSITIVE 308 247 203 51 9 tfor:TF1464|5end_conserved_hypothetical_protein_1553467..1553697_POSITIVE 306 250 202 230 170 tfor:TF1651|5end_integrase_1761296..1761526_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 250 206 100 48 tfor:TF1039|3end_conserved_hypothetical_protein_1101302..1101452_POSITIVE 342 247 215 38 3 tfor:TF1966|3end_conserved_hypothetical_protein_2115476..2115626_POSITIVE 340 234 193 149 109 tfor:TF1280|3end_electron_transfer_flavoprotein,_beta_subunit_1365257..1365407_POSITIVE 338 260 212 59 11 tfor:TF0676|3end_methyltransferase_719865..720015_POSITIVE 330 250 208 57 14 tfor:TF0746|3end_possible_DNA_polymerase_III_792910..793060_POSITIVE 326 188 142 88 42 tfor:TF0434|3end_CTP_synthetase_(UTP_ammonia_ligase)_457027..457177_POSITIVE 324 235 192 72 31 tfor:TF2214|3end_peptidyl-prolyl_cis-trans_isomerase_2387564..2387714_POSITIVE 313 259 220 51 6 tfor:TF1709|3end_conserved_hypothetical_protein_1829710..1829860_POSITIVE 308 244 203 146 106 tfor:TF2607|3end_conserved_hypothetical_protein_2784645..2784795_POSITIVE 300 244 203 45 13 tfor:TF0242|3end_conserved_hypothetical_protein_274069..274219_POSITIVE 299 240 192 57 7 tfor:TF0311|3end_conserved_hypothetical_protein_336383..336533_POSITIVE 297 246 204 138 101 tfor:TF2635|3end_ABC_transporter,_ATP-binding_protein/permease_component_2806101..2806251_POSITIVE 295 236 193 112 56 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 295 240 191 54 4 tfor:TF0180|3end_carboxynorspermidine_decarboxylase_192480..192630_POSITIVE 293 246 202 95 60 tfor:TF0027|3end_conserved_hypothetical_protein_24199..24349_POSITIVE 290 250 202 50 6 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 290 238 193 57 3 tfor:TF1667|3end_biotin_acetyl-CoA_carboxylase_ligase/biotin_operon_repressor_bifunctional_protein_1780311..1780461_POSITIVE 288 255 211 79 32 tfor:TF1980|3end_conserved_hypothetical_protein_2130860..2131010_POSITIVE 287 244 204 143 102 tfor:TF0039|3end_conserved_hypothetical_protein_42956..43106_POSITIVE 284 246 205 45 7 tfor:TF2197|3end_conserved_hypothetical_protein_2372946..2373096_POSITIVE