Origin IGS: tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgagacagaattatttccgtataaaagcaagtgtctcttttatcggatatcggatagccgttatttttaacataatgggatgcagcgttcgaccgcttggtttcatcatatactcgttatgcgtataatttatttggatatgttaataaccggttgaacttatccgaatctattcgtttaatacgatgggtgatttttttgtatatggttgataaaaagattgacaaggttgtttgggttgtttaatctccgcataaaaatcggagaatatggaagtggaaatgttagtaacaaggtgaaaaatagtagtcaatatgcaagataaaaagaaagacacagacgttaaagcggaatgattattgctgtttgattcaaatattgacaataaacaaggagagtcgagcta Mask Tandem Repeat Region ================================================ tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Find is-nt database================================================ Query_seq: TF0584:TF0585|TF0584:TF0585:phosphopantetheinyl transferase:conserved hypothetical protein:->->:614516..614921 406 tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0584:TF0585|TF0584:TF0585:phosphopantetheinyl transferase:conserved hypothetical protein:->->:614516..614921 406 tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0584:TF0585|TF0584:TF0585:phosphopantetheinyl transferase:conserved hypothetical protein:->->:614516..614921 406 tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 113 End: 226 ................................................................................................................ M L L T F P L P Y S P I F M R R L N N P N N L V N L F I N H I Q K N H P S Y .................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 22 End: 234 ..................... M S I F E S N S N N H S A L T S V S F F L S C I L T T I F H L V T N I S T S I F S D F Y A E I K Q P K Q P C Q S F Y Q P ............................................................................................................................................................................ Protein_Len: 36 Strand: + Start: 180 End: 287 ................................................................................................................................................................................... M S I F L S T I Y K K I T H R I K R I D S D K F N R L L T Y P N K L Y A ....................................................................................................................... Protein_Len: 42 Strand: + Start: 268 End: 393 ........................................................................................................................................................................................................................................................................... M Q I N Y T H N E Y M M K P S G R T L H P I M L K I T A I R Y P I K E T L A F I R K ............. Protein_Len: 35 Strand: - Start: 282 End: 386 ......................................................................................................................................................................................................................................................................................... V C L S Y I I F G L P R V S C G M I N F I V A I R Y G I F S V S A K M .................... Protein_Len: 49 Strand: - Start: 164 End: 310 ................................................................................................................................................................... V V W V V K D I K K D V M Y L F I V W R I L R I S E S L N L R N N V Y G F L N Y A Y R T Y S S V M ................................................................................................ Protein_Len: 40 Strand: - Start: 85 End: 204 .................................................................................... R A Y Q S S N K V K N S V N G S G Y E G I K I R L N F L G F L R T L R K I L W M .......................................................................................................................................................................................................... Protein_Len: 31 Strand: - Start: 2 End: 94 . A R S E K N I T L I Q I L C C Y D N R K L T Q T K R K I K C M ........................................................................................................................................................................................................................................................................................................................ tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 84 Start: 278 End: 307 .....................................................................................................................................................................................................................................................................................GTTTCATCATATACTCGTTATGCGTATAAT................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 158 End: 187 .............................................................................................................................................................ATTGACAAGGTTGTTTGGGTTGTTTAATCT........................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 225 End: 254 ................................................................................................................................................................................................................................GTTGAACTTATCCGAATCTATTCGTTTAAT........................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0584:TF0585|TF0584:TF0585:phosphopantetheinyl transferase:conserved hypothetical protein:->->:614516..614921 406 tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Intra-Species Hit: Count: 1 Min: 1 Max: 406 Len: 406 Subject: tfor_TF0584_TF0585|phosphopantetheinyl transferase:conserved hypothetical protein|POSITIVE:POSITIVE|[614516,614921]|406 HSP 1 e-value: 0.0 bit: 763.0 Len: 406 Query Start:1 Query End:406 Subject Strand: POSITIVE Subject Start: 1 Subject End: 406 tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacnnnnnnntcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca tagctcgactctccttgtttattgtcaatatttgaatcaaacagcaataatcattccgctttaacgtctgtgtctttctttttatcttgcatattgactactatttttcaccttgttactaacatttccacttccatattctccgatttttatgcggagattaaacaacccaaacaaccttgtcaatctttttatcaaccatatacaaaaaaatcacccatcgtattaaacgaatagattcggataagttcaaccggttattaacatatccaaataaattatacgcataacgagtatatgatgaaaccaagcggtcgaacgctgcatcccattatgttaaaaataacggctatccgatatccgataaaagagacacttgcttttatacggaaataattctgtctca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCUCGACUCUCCUUGUUUAUUGUCAAUAUUUGAAUCAAACAGCAAUAAUCAUUCCGCUUUAACGUCUGUGUCUUUCUUUUUAUCUUGCAUAUUGACUACUAUUUUUCACCUUGUUACUAACAUUUCCACUUCCAUAUUCUCCGAUUUUUAUGCGGAGAUUAAACAACCCAAACAACCUUGUCAAUCUUUUUAUCAACCAUAUACAAAAAAAUCACCCAUCGUAUUAAACGAAUAGAUUCGGAUAAGUUCAACCGGUUAUUAACAUAUCCAAAUAAAUUAUACGCAUAACGAGUAUAUGAUGAAACCAAGCGGUCGAACGCUGCAUCCCAUUAUGUUAAAAAUAACGGCUAUCCGAUAUCCGAUAAAAGAGACACUUGCUUUUAUACGGAAAUAAUUCUGUCUCA ......(((.....((((((....(((.....)))...)))))).........(((((....((.((..(((((((...(((((((......((((((...............(((.....)))............((.((((((.........)))))).))..................)))))).................................((((.....))))...((((((((((.(((......(((.((((((((...........(((((.(.....).))))).((((......((((......)))).))))....)))))))).)))...)))))))))).))).))))))))))))))..)).))....)))))........)))... (-69.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGACAGAAUUAUUUCCGUAUAAAAGCAAGUGUCUCUUUUAUCGGAUAUCGGAUAGCCGUUAUUUUUAACAUAAUGGGAUGCAGCGUUCGACCGCUUGGUUUCAUCAUAUACUCGUUAUGCGUAUAAUUUAUUUGGAUAUGUUAAUAACCGGUUGAACUUAUCCGAAUCUAUUCGUUUAAUACGAUGGGUGAUUUUUUUGUAUAUGGUUGAUAAAAAGAUUGACAAGGUUGUUUGGGUUGUUUAAUCUCCGCAUAAAAAUCGGAGAAUAUGGAAGUGGAAAUGUUAGUAACAAGGUGAAAAAUAGUAGUCAAUAUGCAAGAUAAAAAGAAAGACACAGACGUUAAAGCGGAAUGAUUAUUGCUGUUUGAUUCAAAUAUUGACAAUAAACAAGGAGAGUCGAGCUA ..((.((((((((((.((((..........((((((.(((((((.......(.((..(((((((.......))))))).)).).((((..(((..((...(((((((.(((((.(.....).))))).............(((((.((((...((((((..((((((((((((.(((.....)))))))..(((((((((((.........))))))))))).........)))))))).))))))((((((.((....))))))))................)))).))))).)))))))...))..)))...))))..)))))))....))))))..........))))))))))).)))))(((((((((.....(((........)))...))))))))).. (-90.75) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 352 159 111 212 155 tfor:TF0014|5end_beta-glucosidase_(beta-D-glucoside_glucohydrolase),_periplasmic_7233..7463_POSITIVE 342 354 311 88 45 tfor:TF0181|5end_ATP-dependent_DNA_helicase_192408..192638_POSITIVE 329 360 311 68 15 tfor:TF1402|5end_cation_efflux_system_protein_1477922..1478152_POSITIVE 321 349 301 59 12 tfor:TF0941|5end_transposase_fragment_981973..982203_POSITIVE 309 146 112 49 10 tfor:TF0143|5end_aspartate--ammonia_ligase_151390..151620_POSITIVE 302 337 291 180 143 tfor:TF1322|5end_conserved_hypothetical_protein;_possible_surface_protein_1401864..1402094_POSITIVE 302 328 283 208 154 tfor:TF0033|5end_outer_membrane_protein_29191..29421_POSITIVE 301 350 301 210 160 tfor:TF2931|5end_3-deoxy-D-manno-2-octulosonic_acid_(Kdo_transferase)_3134275..3134505_POSITIVE 299 330 284 175 118 tfor:TF0463|5end_precorrin-6Y_C5,15-methyltransferase_479015..479245_POSITIVE 296 360 311 101 36 tfor:TF0604|5end_hypothetical_protein_635385..635615_POSITIVE 295 198 151 212 165 tfor:TF2324|5end_conserved_hypothetical_protein;_possible_cobalamin_adenosyltransferase_2483714..2483944_POSITIVE 293 326 281 231 182 tfor:TF0472|5end_multidrug_resistance_protein,_AcrB/AcrD/AcrF_family_(cation_efflux_pump)_487813..488043_POSITIVE 288 99 56 180 134 tfor:TF2489|5end_hypothetical_protein_2664418..2664648_POSITIVE 283 338 291 66 1 tfor:TF1415|5end_outer_membrane_protein,_TonB_dependent_receptor_1494268..1494498_POSITIVE 282 258 222 228 194 tfor:TF2909|5end_GTP-binding_protein,_possible_GTP1/OBG_family_3104644..3104874_POSITIVE 281 330 286 208 162 tfor:TF0175|5end_hypothetical_protein_185585..185815_POSITIVE 280 358 311 177 110 tfor:TF1808|5end_DNA_processing_protein_subunit_A_1949356..1949586_POSITIVE 279 333 291 122 86 tfor:TF2126|5end_S-adenosylhomocysteine_hydrolase_2302501..2302731_POSITIVE 278 81 42 73 37 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 278 159 111 162 108 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 354 311 80 37 tfor:TF0180|3end_carboxynorspermidine_decarboxylase_192480..192630_POSITIVE 329 360 311 91 38 tfor:TF1403|3end_hypothetical_protein_1478025..1478175_POSITIVE 309 146 112 62 23 tfor:TF0144|3end_hypothetical_protein_151483..151633_POSITIVE 302 337 291 150 113 tfor:TF1321|3end_conserved_hypothetical_protein_1401914..1402064_POSITIVE 291 349 303 46 1 tfor:TF0940|3end_transposase_982040..982190_POSITIVE 282 384 341 59 12 tfor:TF0382|3end_transcription_termination_factor_405228..405378_POSITIVE 281 330 286 143 97 tfor:TF0174|3end_hypothetical_protein_185600..185750_POSITIVE 278 81 42 68 32 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 277 338 309 41 7 tfor:TF1414|3end_hypothetical_protein_1494323..1494473_POSITIVE 277 359 311 110 68 tfor:TF0429|3end_ABC_transporter,_ATP-binding_protein_452227..452377_POSITIVE 275 357 317 106 59 tfor:TF2153|3end_6-phosphofructokinase_2329172..2329322_POSITIVE 274 357 311 61 18 tfor:TF1314|3end_conserved_hypothetical_protein_1390302..1390452_POSITIVE 273 159 111 105 42 tfor:TF2999|3end_conserved_hypothetical_protein_3215891..3216041_POSITIVE 272 360 313 64 5 tfor:TF2807|3end_possible_chloride_channel_protein_2998534..2998684_POSITIVE 271 350 308 144 108 tfor:TF1435|3end_acetate_coenzyme_A_transferase_1521144..1521294_POSITIVE 271 255 211 147 106 tfor:TF1200|3end_conserved_hypothetical_protein_1283798..1283948_POSITIVE 271 329 284 150 100 tfor:TF0818|3end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_878517..878667_POSITIVE 268 337 291 81 28 tfor:TF1730|3end_diaminopimelate_decarboxylase_1855907..1856057_POSITIVE 267 390 350 146 111 tfor:TF2471|3end_conserved_hypothetical_protein_2649931..2650081_POSITIVE 267 334 291 136 105 tfor:TF1744|3end_phenylacetate-CoA_ligase_1879218..1879368_POSITIVE