Origin IGS: gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgacattttcagggaattaggcaaccatacgcgacgatttactaaaacatcttcaaaatccaccgcacttctcatcaataaaccaaaaagtgcggtggttttttcaagcgtttttattgacataaagaggacaac Mask Tandem Repeat Region ================================================ gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Find is-nt database================================================ Query_seq: AA01881:AA01883|AA01881:AA01883:adenylate kinase:recycling protein; permease:->->:1269826..1269960 135 gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01881:AA01883|AA01881:AA01883:adenylate kinase:recycling protein; permease:->->:1269826..1269960 135 gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01881:AA01883|AA01881:AA01883:adenylate kinase:recycling protein; permease:->->:1269826..1269960 135 gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 13 End: 135 ............ M S I K T L E K T T A L F G L L M R S A V D F E D V L V N R R V W L P N S L K M S Protein_Len: 32 Strand: - Start: 14 End: 109 ............. T L L F A Q F F W R V K Q N I S S F H P P N Q L H K L L D D R M .......................... Protein_Len: 43 Strand: - Start: 3 End: 131 .. T R K I D I F V S S F V V A S K P K N I L L A T S K S S T K T F R R T H N G L E R F M .... gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca 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================================================ gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 68 HP_score: -6.2 Tail_Score: -4.16146 Start: 37 End: 77 Full_Region: AAAACGCTTGAAAAA ACCACCGCACTTTTTG GTTTATTGA TGAGAAGTGCGGTGGA TTTTGAAGATGTTTT ....................................ACCACCGCACTTTTTGGTTTATTGATGAGAAGTGCGGTGGA.......................................................... TransTerm Strand: + Conf: 76 HP_score: -9.7 Tail_Score: -3.08603 Start: 38 End: 76 Full_Region: AAACGCTTGAAAAAA CCACCGCACTTTTTG GTTTATTGA TGAGAAGTGCGGTGG ATTTTGAAGATGTTT .....................................CCACCGCACTTTTTGGTTTATTGATGAGAAGTGCGGTGG........................................................... TransTerm Strand: - Conf: 80 HP_score: -6.1 Tail_Score: -5.03747 Start: 38 End: 76 Full_Region: aaacatcttcaaaat ccaccgcacttct catcaataaacca aaaagtgcggtgg ttttttcaagcgttt .....................................ccaccgcacttctcatcaataaaccaaaaagtgcggtgg........................................................... Find igs database================================================ Query_seq: AA01881:AA01883|AA01881:AA01883:adenylate kinase:recycling protein; permease:->->:1269826..1269960 135 gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Intra-Species Hit: Count: 1 Min: 1 Max: 135 Len: 135 Subject: aact_AA01881_AA01883|adenylate kinase:recycling protein; permease|POSITIVE:POSITIVE|[1269826,1269960]|135 HSP 1 e-value: 4.0E-71 bit: 268.0 Len: 135 Query Start:1 Query End:135 Subject Strand: POSITIVE Subject Start: 1 Subject End: 135 gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca gttgtcctctttatgtcaataaaaacgcttgaaaaaaccaccgcactttttggtttattgatgagaagtgcggtggattttgaagatgttttagtaaatcgtcgcgtatggttgcctaattccctgaaaatgtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUGUCCUCUUUAUGUCAAUAAAAACGCUUGAAAAAACCACCGCACUUUUUGGUUUAUUGAUGAGAAGUGCGGUGGAUUUUGAAGAUGUUUUAGUAAAUCGUCGCGUAUGGUUGCCUAAUUCCCUGAAAAUGUCA ...............(((....((((((((.((((..(((((((((((((((.........))))))))))))))).)))).))).)))))(((..((((((.....))))))..)))......)))........ (-32.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACAUUUUCAGGGAAUUAGGCAACCAUACGCGACGAUUUACUAAAACAUCUUCAAAAUCCACCGCACUUCUCAUCAAUAAACCAAAAAGUGCGGUGGUUUUUUCAAGCGUUUUUAUUGACAUAAAGAGGACAAC ..........((..((((..((........))...))))..))......(((((.....(((((((((((.................)))))))))))...........(((......))).....))))).... (-26.93) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 433 50 2 178 132 aact:AA02030|5end_threonyl-tRNA_synthetase_1382171..1382401_POSITIVE 424 105 61 151 107 aact:AA02860|5end_conserved_hypothetical_protein_2006074..2006304_POSITIVE 408 70 21 207 155 aact:AA01824|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1227705..1227935_POSITIVE 408 70 21 65 13 aact:AA01823|5end_hypothetical_protein_1227563..1227793_POSITIVE 407 74 32 147 105 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 402 69 21 144 94 aact:AA02310|5end_conserved_hypothetical_protein_1579249..1579479_POSITIVE 402 49 8 165 130 aact:AA00250|5end_lipoate_biosynthesis_protein_A_175496..175726_POSITIVE 400 70 21 222 168 aact:AA01471|5end_type_I_restriction_enzyme_M_(modification_chain)_987321..987551_POSITIVE 398 60 20 187 139 aact:AA02597|5end_ribonuclease_D_1807124..1807354_POSITIVE 398 74 40 204 170 aact:AA02288|5end_conserved_hypothetical_protein_1558590..1558820_POSITIVE 398 89 41 214 162 aact:AA01524|5end_amino_acid_ABC_transporter,_ATP-binding_protein_1023500..1023730_POSITIVE 396 105 62 147 92 aact:AA01737|5end_exoribonuclease_II_1172647..1172877_POSITIVE 396 76 33 163 121 aact:AA01020|5end_enonolase;_2-phosphoglycerate_dehydratase_712741..712971_POSITIVE 394 105 61 160 116 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 394 104 61 154 113 aact:AA01666|5end_penicillin-binding_protein_4;_D-alanyl-D-alanine_carboxypeptidase;_D-alanyl-D-alanine-endopeptidase_1128231..1128461_POSITIVE 388 80 34 204 162 aact:AA02144|5end_iron_(III)_ABC_transporter,_permease_protein_1467583..1467813_POSITIVE 388 80 34 54 12 aact:AA02143|5end_hypothetical_protein_1467433..1467663_POSITIVE 386 50 1 230 185 aact:AA02966|5end_conserved_hypothetical_protein_2074223..2074453_POSITIVE 386 50 1 76 31 aact:AA02965|5end_hypothetical_protein_2074069..2074299_POSITIVE 386 56 14 125 82 aact:AA02106|5end_hypothetical_protein_1433241..1433471_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 433 50 2 142 96 aact:AA02029|3end_hypothetical_protein_1382215..1382365_POSITIVE 424 105 61 65 21 aact:AA02858|3end_conserved_hypothetical_protein_2006068..2006218_POSITIVE 408 70 21 93 41 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 408 63 21 95 47 aact:AA01611|3end_anthranilate_synthase_component_II_1089619..1089769_POSITIVE 407 74 32 59 17 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 401 53 14 149 110 aact:AA01823|3end_hypothetical_protein_1227747..1227897_POSITIVE 398 60 20 93 45 aact:AA02595|3end_cytochrome_c_peroxidase_1807110..1807260_POSITIVE 398 74 40 70 36 aact:AA02286|3end_sugar_ABC_transporter,_ATP-binding_protein_1558536..1558686_POSITIVE 396 105 62 134 79 aact:AA01735|3end_hypothetical_protein_1172714..1172864_POSITIVE 396 76 33 61 19 aact:AA01019|3end_conserved_hypothetical_protein_712719..712869_POSITIVE 394 105 61 135 91 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 394 104 61 47 6 aact:AA01663|3end_GTP_cyclohydrolase_I_1128204..1128354_POSITIVE 388 80 34 73 31 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 386 50 1 55 10 aact:AA02964|3end_opacity_associated_protein_A_2074128..2074278_POSITIVE 386 56 14 94 51 aact:AA02105|3end_killing_protein_1433290..1433440_POSITIVE 385 77 31 62 15 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 383 76 34 72 30 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 383 50 2 89 37 aact:AA00212|3end_ribokinase_147047..147197_POSITIVE 382 77 33 145 96 aact:AA00551|3end_hypothetical_protein_377403..377553_POSITIVE 379 90 41 78 31 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE