Origin IGS: taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa .........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 ttgtttccttcctttcgttataacagggtaaaccgccgtatctcctgttaaataaacaaagttaacaattcacaaaccgaacagctcagtggtttctgatacggctgacgacttatcctataataattttataacgatatttgtgacttaaatcaaaaattcataaatttgttcttccacgtggcttgacaatgtaagcaacactgtattctttatcaatataatcggaacaaattgaaaagaaagggattatccataggcgttaagagcagacattatccccaaagtgcggtgggtttgaaaaacgttttttaagcctaccgcactttttaggttttttggcagtaaagaaaaaagccgcctgaaggagcaaattttcagacggctttggaatttatctgtttagcaaatta Mask Tandem Repeat Region ================================================ taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Find is-nt database================================================ Query_seq: AA00068:AA00069|AA00068:AA00069:manganese superoxide dismutase:conserved hypothetical protein:->->:52192..52604 413 taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00068:AA00069|AA00068:AA00069:manganese superoxide dismutase:conserved hypothetical protein:->->:52192..52604 413 taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00068:AA00069|AA00068:AA00069:manganese superoxide dismutase:conserved hypothetical protein:->->:52192..52604 413 taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 20 End: 148 ................... M P K P S E N L L L Q A A F F F T A K K P K K C G R L K K R F S N P P H F G D N V C S ......................................................................................................................................................................................................................................................................... Protein_Len: 43 Strand: + Start: 33 End: 161 ................................ M K I C S F R R L F S L L P K N L K S A V G L K N V F Q T H R T L G I M S A L N A Y G ............................................................................................................................................................................................................................................................ Protein_Len: 30 Strand: + Start: 161 End: 250 ................................................................................................................................................................ M I P F F S I C S D Y I D K E Y S V A Y I V K P R G R T N L ................................................................................................................................................................... Protein_Len: 35 Strand: - Start: 102 End: 206 ..................................................................................................... F V N K L G V A S Q P Y H R S K V G I S L G K R K L K N R N Y Q Y L M ............................................................................................................................................................................................................... taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa 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: 194 End: 223 .................................................................................................................................................................................................ATTGATAAAGAATACAGTGTTGCTTACATT.............................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 257 End: 286 ................................................................................................................................................................................................................................................................TTTGATTTAAGTCACAAATATCGTTATAAA............................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 66 HP_score: -6.4 Tail_Score: -3.75418 Start: 28 End: 57 Full_Region: gcagtaaagaaaaaa gccgcctgaagg agcaaa ttttcagacggc tttggaatttatctg ...........................gccgcctgaaggagcaaattttcagacggc.................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -11.7 Tail_Score: -5.03314 Start: 80 End: 134 Full_Region: aagagcagacattat ccccaaagtgcggtgggtttgaaaa acgt tttttaagcctaccgcactttttagg ttttttggcagtaaa ...............................................................................ccccaaagtgcggtgggtttgaaaaacgttttttaagcctaccgcactttttagg....................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 84 HP_score: -10.8 Tail_Score: -3.5882 Start: 88 End: 127 Full_Region: CAAAAAACCTAAAAA GTGCGGTAGGCTTAAAAA ACGT TTTTCAAACCCACCGCAC TTTGGGGATAATGTC .......................................................................................GTGCGGTAGGCTTAAAAAACGTTTTTCAAACCCACCGCAC.............................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -17.4 Tail_Score: -4.95854 Start: 88 End: 127 Full_Region: gacattatccccaaa gtgcggtgggtttgaaaa acgt tttttaagcctaccgcac tttttaggttttttg .......................................................................................gtgcggtgggtttgaaaaacgttttttaagcctaccgcac.............................................................................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: AA00068:AA00069|AA00068:AA00069:manganese superoxide dismutase:conserved hypothetical protein:->->:52192..52604 413 taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Intra-Species Hit: Count: 1 Min: 1 Max: 413 Len: 413 Subject: aact_AA00068_AA00069|manganese superoxide dismutase:conserved hypothetical protein|POSITIVE:POSITIVE|[52192,52604]|413 HSP 1 e-value: 0.0 bit: 819.0 Len: 413 Query Start:1 Query End:413 Subject Strand: POSITIVE Subject Start: 1 Subject End: 413 taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa taatttgctaaacagataaattccaaagccgtctgaaaatttgctccttcaggcggcttttttctttactgccaaaaaacctaaaaagtgcggtaggcttaaaaaacgtttttcaaacccaccgcactttggggataatgtctgctcttaacgcctatggataatccctttcttttcaatttgttccgattatattgataaagaatacagtgttgcttacattgtcaagccacgtggaagaacaaatttatgaatttttgatttaagtcacaaatatcgttataaaattattataggataagtcgtcagccgtatcagaaaccactgagctgttcggtttgtgaattgttaactttgtttatttaacaggagatacggcggtttaccctgttataacgaaaggaaggaaacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUGCUAAACAGAUAAAUUCCAAAGCCGUCUGAAAAUUUGCUCCUUCAGGCGGCUUUUUUCUUUACUGCCAAAAAACCUAAAAAGUGCGGUAGGCUUAAAAAACGUUUUUCAAACCCACCGCACUUUGGGGAUAAUGUCUGCUCUUAACGCCUAUGGAUAAUCCCUUUCUUUUCAAUUUGUUCCGAUUAUAUUGAUAAAGAAUACAGUGUUGCUUACAUUGUCAAGCCACGUGGAAGAACAAAUUUAUGAAUUUUUGAUUUAAGUCACAAAUAUCGUUAUAAAAUUAUUAUAGGAUAAGUCGUCAGCCGUAUCAGAAACCACUGAGCUGUUCGGUUUGUGAAUUGUUAACUUUGUUUAUUUAACAGGAGAUACGGCGGUUUACCCUGUUAUAACGAAAGGAAGGAAACAA ............(((.((((....(((((((((((((..........)))))))))))))....))))))).............((((((((((.((.((.((((....)))).)).)).)))))))))).(((((..(((((((.......))....)))))))))).((((((((.((((((((....................(((((((.....)))))))....((....))..))))))))......((((.((((....)))).)))).((((((((........(((((.(((..(....((((((((......(((.(((((....))))))))..(((((((..........)))))))..)))))))))..))).)))))))))))))..)))))))).... (-105.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUUUCCUUCCUUUCGUUAUAACAGGGUAAACCGCCGUAUCUCCUGUUAAAUAAACAAAGUUAACAAUUCACAAACCGAACAGCUCAGUGGUUUCUGAUACGGCUGACGACUUAUCCUAUAAUAAUUUUAUAACGAUAUUUGUGACUUAAAUCAAAAAUUCAUAAAUUUGUUCUUCCACGUGGCUUGACAAUGUAAGCAACACUGUAUUCUUUAUCAAUAUAAUCGGAACAAAUUGAAAAGAAAGGGAUUAUCCAUAGGCGUUAAGAGCAGACAUUAUCCCCAAAGUGCGGUGGGUUUGAAAAACGUUUUUUAAGCCUACCGCACUUUUUAGGUUUUUUGGCAGUAAAGAAAAAAGCCGCCUGAAGGAGCAAAUUUUCAGACGGCUUUGGAAUUUAUCUGUUUAGCAAAUUA ..............(((((((((.(((((((.(.((((((((...((((((..........))))))......((((((..........))))))..)))))))).).....))))))).........))))))))).((((((((((((((.......((((...(((((((((.....((.(((((......))))).))..((((((.......))))))...)))))))))))))......(((((.........((.......)).......)))))..((((((((((((((((((((....))))))))))))))))))))))))))))....(((((((((....(((((((.(((((((......))))))).)))))))....)))).)))))..)))))).. (-108.69) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 533 130 84 165 119 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 466 130 84 169 123 aact:AA00721|5end_probable_beta-N-acetylhexosaminidase_(lacto-N-biosidase);_dispersin_B_494739..494969_POSITIVE 466 130 84 57 11 aact:AA00719|5end_hypothetical_protein_494627..494857_POSITIVE 433 130 83 151 104 aact:AA00386|5end_aspartate--ammonia_ligase_(asparagine_synthetase_A)_261150..261380_POSITIVE 425 130 82 158 110 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 418 130 85 163 118 aact:AA01967|5end_hypothetical_protein_1331511..1331741_POSITIVE 418 130 84 183 125 aact:AA01824|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1227705..1227935_POSITIVE 418 130 81 151 100 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 417 138 91 189 140 aact:AA02101|5end_penicillin-binding_protein_7_1430830..1431060_POSITIVE 414 130 84 220 174 aact:AA02778|5end_hypothetical_protein_1942585..1942815_POSITIVE 407 130 81 50 2 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 403 130 81 150 102 aact:AA02888|5end_ssrA-binding_protein,_small_protein_B_2024628..2024858_POSITIVE 399 130 85 135 83 aact:AA00422|5end_LapB_membrane_protein_285528..285758_POSITIVE 396 130 84 164 110 aact:AA02249|5end_thiamine_biosynthesis_protein_1528365..1528595_POSITIVE 396 350 303 216 164 aact:AA00519|5end_O-acetyltransferase_357139..357369_POSITIVE 395 130 83 171 124 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 386 130 84 159 113 aact:AA00766|5end_heat_shock_protein_B25.3_(HSP-70_cofactor)_527384..527614_POSITIVE 380 130 81 156 108 aact:AA02426|5end_uridylyltransferase_1671663..1671893_POSITIVE 380 160 119 173 136 aact:AA00974|5end_glucosamine-fructose-6-phosphate_679215..679445_POSITIVE 379 130 88 153 116 aact:AA00300|5end_conserved_hypothetical_protein_203785..204015_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 533 130 84 140 94 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 466 130 84 73 27 aact:AA00718|3end_ABC-related_ATP-binding_protein;_MRP_protein_494723..494873_POSITIVE 433 130 83 89 42 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 418 130 85 86 41 aact:AA01966|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1331514..1331664_POSITIVE 418 130 84 145 87 aact:AA01823|3end_hypothetical_protein_1227747..1227897_POSITIVE 418 130 84 69 11 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 418 130 81 85 34 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 414 130 84 82 36 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 403 130 81 76 28 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 396 130 84 74 20 aact:AA02246|3end_peptidase_E_1528355..1528505_POSITIVE 384 130 85 75 30 aact:AA00629|3end_inosine_5'_monophosphate_dehydrogenase_(IMP_dehydrogenase)_433469..433619_POSITIVE 380 130 81 74 26 aact:AA02425|3end_glutamate-1-semialdehyde_aminotransferase_1671661..1671811_POSITIVE 380 160 119 115 78 aact:AA00973|3end_transcriptional_regulator,_DeoR_family_679237..679387_POSITIVE 373 130 86 109 68 aact:AA00909|3end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_B_627183..627333_POSITIVE 371 130 81 70 22 aact:AA02858|3end_conserved_hypothetical_protein_2006068..2006218_POSITIVE 370 130 81 66 7 aact:AA01663|3end_GTP_cyclohydrolase_I_1128204..1128354_POSITIVE 370 145 101 100 46 aact:AA01611|3end_anthranilate_synthase_component_II_1089619..1089769_POSITIVE 366 140 91 122 69 aact:AA01217|3end_hypothetical_protein_832855..833005_POSITIVE 364 130 84 75 29 aact:AA02562|3end_adenine_specific_methylase_1785146..1785296_POSITIVE 363 60 13 66 20 aact:AA00068|3end_manganese_superoxide_dismutase_52131..52281_POSITIVE