Origin IGS: taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc .........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 ggttgtctcttattttttaagtgaaattaacggggcgcattatagcaaagtgcggtcggtttttttagtgtttttcatttgaactttttttaacaaaggatacgcgtcaggagacgcgtgtcagcataatcattcatatttagtcaaaagtgcgggtcattttcccaatcatttctcgagtccaaaaaacactttcaatatccaccgcacttttttacatatcatactattaataatcactacgctagcacgtttcctaaccacaaccgttcgaaacatgtaatacattgatatttcaaaagtatcttaccccctgtaaacgaggggagccaagttactaaagagccaaaatatttcaaacggctatggctaggagattcgtgttttcagaagtgactaagataattcatta Mask Tandem Repeat Region ================================================ taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Find is-nt database================================================ Query_seq: AA02602:AA02603|AA02602:AA02603:conserved hypothetical protein:possible thioredoxin trxA homolog:->->:1814363..1814774 412 taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02602:AA02603|AA02602:AA02603:conserved hypothetical protein:possible thioredoxin trxA homolog:->->:1814363..1814774 412 taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02602:AA02603|AA02602:AA02603:conserved hypothetical protein:possible thioredoxin trxA homolog:->->:1814363..1814774 412 taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 54 End: 170 ..................................................... M K Y F G S L V T W L P S F T G G K I L L K Y Q C I T C F E R L W L G N V L A .................................................................................................................................................................................................................................................. Protein_Len: 41 Strand: + Start: 119 End: 241 ...................................................................................................................... M S M Y Y M F R T V V V R K R A S V V I I N S M I C K K V R W I L K V F F G L E K ........................................................................................................................................................................... Protein_Len: 51 Strand: - Start: 125 End: 277 ............................................................................................................................ H I V H K S R N H N P F T S A Y H N N I T H Y T F F H P P Y Q F H K K S E L F S Q S F S G C K Q S F M ....................................................................................................................................... Protein_Len: 30 Strand: - Start: 20 End: 109 ................... K Q F C S D G L W L R K F Y K P E K T V Q S G E N V P P L M ............................................................................................................................................................................................................................................................................................................... taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc 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================================================ taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 75 HP_score: -7.5 Tail_Score: -4.15222 Start: 290 End: 315 Full_Region: TATGAATGATTATGC TGACACGCGTC TCCT GACGCGTATCC TTTGTTAAAAAAAGT .................................................................................................................................................................................................................................................................................................TGACACGCGTCTCCTGACGCGTATCC................................................................................................. TransTerm Strand: + Conf: 80 HP_score: -11.0 Tail_Score: -3.08812 Start: 291 End: 314 Full_Region: ATGAATGATTATGCT GACACGCGTC TCCT GACGCGTATC CTTTGTTAAAAAAAG ..................................................................................................................................................................................................................................................................................................GACACGCGTCTCCTGACGCGTATC.................................................................................................. TransTerm Strand: + Conf: 78 HP_score: -10.4 Tail_Score: -3.10761 Start: 295 End: 310 Full_Region: ATGATTATGCTGACA CGCGTC TCCT GACGCG TATCCTTTGTTAAAA ......................................................................................................................................................................................................................................................................................................CGCGTCTCCTGACGCG...................................................................................................... Find igs database================================================ Query_seq: AA02602:AA02603|AA02602:AA02603:conserved hypothetical protein:possible thioredoxin trxA homolog:->->:1814363..1814774 412 taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgttaaaaaaagttcaaatgaaaaacactaaaaaaaccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Intra-Species Hit: Count: 1 Min: 1 Max: 412 Len: 412 Subject: aact_AA02602_AA02603|conserved hypothetical protein:possible thioredoxin trxA homolog|POSITIVE:POSITIVE|[1814363,1814774]|412 HSP 1 e-value: 0.0 bit: 636.0 Len: 321 Query Start:1 Query End:321 Subject Strand: POSITIVE Subject Start: 1 Subject End: 321 taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgtt........................................................................................... taatgaattatcttagtcacttctgaaaacacgaatctcctagccatagccgtttgaaatattttggctctttagtaacttggctcccctcgtttacagggggtaagatacttttgaaatatcaatgtattacatgtttcgaacggttgtggttaggaaacgtgctagcgtagtgattattaatagtatgatatgtaaaaaagtgcggtggatattgaaagtgttttttggactcgagaaatgattgggaaaatgacccgcacttttgactaaatatgaatgattatgctgacacgcgtctcctgacgcgtatcctttgtt........................................................................................... HSP 2 e-value: 3.0E-25 bit: 117.0 Len: 59 Query Start:354 Query End:412 Subject Strand: POSITIVE Subject Start: 354 Subject End: 412 .................................................................................................................................................................................................................................................................................................................................................................ccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc .................................................................................................................................................................................................................................................................................................................................................................ccgaccgcactttgctataatgcgccccgttaatttcacttaaaaaataagagacaacc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGAAUUAUCUUAGUCACUUCUGAAAACACGAAUCUCCUAGCCAUAGCCGUUUGAAAUAUUUUGGCUCUUUAGUAACUUGGCUCCCCUCGUUUACAGGGGGUAAGAUACUUUUGAAAUAUCAAUGUAUUACAUGUUUCGAACGGUUGUGGUUAGGAAACGUGCUAGCGUAGUGAUUAUUAAUAGUAUGAUAUGUAAAAAAGUGCGGUGGAUAUUGAAAGUGUUUUUUGGACUCGAGAAAUGAUUGGGAAAAUGACCCGCACUUUUGACUAAAUAUGAAUGAUUAUGCUGACACGCGUCUCCUGACGCGUAUCCUUUGUUAAAAAAAGUUCAAAUGAAAAACACUAAAAAAACCGACCGCACUUUGCUAUAAUGCGCCCCGUUAAUUUCACUUAAAAAAUAAGAGACAACC ...............(((.(((.......((((....(((((((((((((((((((((((((....((.....((((.((((.(.(((((.(....))))))))))).)))).((((....)))).)).....)))))))))))))))))))))))))..)))).......(((((..(((((..(..((...((((..((((((((((((........(((((((((((((((............(((.......)))....(((((((....(((((....)))))..((.(((((((....))))))).))....)))))))..))))))....))))))))).......)).))))))))))..))))...))..)..))))).)))))........))).))).... (-120.76) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUUGUCUCUUAUUUUUUAAGUGAAAUUAACGGGGCGCAUUAUAGCAAAGUGCGGUCGGUUUUUUUAGUGUUUUUCAUUUGAACUUUUUUUAACAAAGGAUACGCGUCAGGAGACGCGUGUCAGCAUAAUCAUUCAUAUUUAGUCAAAAGUGCGGGUCAUUUUCCCAAUCAUUUCUCGAGUCCAAAAAACACUUUCAAUAUCCACCGCACUUUUUUACAUAUCAUACUAUUAAUAAUCACUACGCUAGCACGUUUCCUAACCACAACCGUUCGAAACAUGUAAUACAUUGAUAUUUCAAAAGUAUCUUACCCCCUGUAAACGAGGGGAGCCAAGUUACUAAAGAGCCAAAAUAUUUCAAACGGCUAUGGCUAGGAGAUUCGUGUUUUCAGAAGUGACUAAGAUAAUUCAUUA ((((((((.(((((((...(((((.(((((..(.((........)).(((((((((.(((......(((((((((.((((((................((((((((((....)))))))))).........................(((((.(((.......)))...))))).))))))...)))))))))......))).)))))))))..............)..)))))..)))))..(..(((((((((((((.(((...(((((.((((...........((((....)))).((((.(((.((((((.......))))).)..))).))))..............)))).)))))...))).)))))))..))))))..).)))))))...))))))))..... (-106.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 509 170 121 227 173 aact:AA00474|5end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_330175..330405_POSITIVE 484 396 354 150 109 aact:AA01291|5end_excinuclease_ABC_subunit_A_872829..873059_POSITIVE 457 140 91 175 117 aact:AA02187|5end_hypothetical_protein_1492603..1492833_POSITIVE 399 250 201 145 96 aact:AA01673|5end_riboflavin_synthase,_alpha_chain_1131477..1131707_POSITIVE 399 103 77 179 154 aact:AA00862|5end_conserved_hypothetical_protein_596465..596695_POSITIVE 388 104 72 142 113 aact:AA01422|5end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956009..956239_POSITIVE 384 250 201 211 153 aact:AA01151|5end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_788323..788553_POSITIVE 384 316 284 148 116 aact:AA00698|5end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477191..477421_POSITIVE 376 319 277 180 138 aact:AA00729|5end_possible_hemolysin_(TlyC-like)_500204..500434_POSITIVE 368 385 355 152 124 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 367 239 193 148 103 aact:AA00679|5end_cytoplasmic_axial_filament_(Ribonuclease_G)_463288..463518_POSITIVE 364 376 336 204 163 aact:AA00268|5end_acyl_carrier_protein_(ACP)_188104..188334_POSITIVE 364 376 336 53 12 aact:AA00267|5end_hypothetical_protein_187953..188183_POSITIVE 362 370 338 173 140 aact:AA01458|5end_aminotransferase_978820..979050_POSITIVE 359 265 221 59 15 aact:AA02442|5end_thioredoxin-family_protein_1685704..1685934_POSITIVE 358 382 343 230 175 aact:AA01462|5end_xylose_operon_regulatory_protein_981530..981760_POSITIVE 358 382 343 112 57 aact:AA01460|5end_hypothetical_protein_981412..981642_POSITIVE 356 377 338 149 98 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 354 321 283 219 182 aact:AA00740|5end_citrate_lyase_related_biosynthesis_protein_(2-(5'-triphosphoribosyl)-3'-dephosphocoenzyme-A_synthase)_505260..505490_POSITIVE 354 321 283 46 9 aact:AA00738|5end_hypothetical_protein_505087..505317_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 601 176 131 64 21 aact:AA01173|3end_VapD-homolog_804385..804535_POSITIVE 484 396 354 89 48 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 469 150 101 117 67 aact:AA01271|3end_hypothetical_protein_863981..864131_POSITIVE 434 165 121 46 3 aact:AA01270|3end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863897..864047_POSITIVE 425 179 134 77 29 aact:AA02602|3end_conserved_hypothetical_protein_1814302..1814452_POSITIVE 414 170 127 49 1 aact:AA00473|3end_tryptophanyl-tRNA_synthetase_330077..330227_POSITIVE 411 170 126 110 61 aact:AA01660|3end_hypothetical_protein_1125282..1125432_POSITIVE 399 250 201 106 57 aact:AA01672|3end_conserved_hypothetical_protein_1131518..1131668_POSITIVE 384 153 111 46 3 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 384 316 284 51 19 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE 371 382 354 106 77 aact:AA02564|3end_transketolase_N-terminal_section_1786783..1786933_POSITIVE 362 370 338 81 48 aact:AA01457|3end_D-xylose_ABC_transporter,_membrane_spanning_protein_978808..978958_POSITIVE 359 265 221 66 22 aact:AA02440|3end_ABC_transporter,_ATP-binding_protein_1685791..1685941_POSITIVE 358 382 343 112 57 aact:AA01459|3end_Na(+)/H(+)_antiporter_981492..981642_POSITIVE 356 377 338 109 58 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 354 321 283 135 98 aact:AA00738|3end_hypothetical_protein_505256..505406_POSITIVE 350 388 346 59 7 aact:AA01631|3end_dihydrodipicolinate_reductase_1103915..1104065_POSITIVE 349 240 195 125 78 aact:AA01735|3end_hypothetical_protein_1172714..1172864_POSITIVE 347 167 130 43 3 aact:AA00776|3end_conserved_hypothetical_protein_533869..534019_POSITIVE 340 382 355 149 124 aact:AA00992|3end_ribonuclease_BN_694568..694718_POSITIVE