Origin IGS: tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatttctcaaagacgccacccgtactgcgggcgggcttgttgggcttggcttgttacttggcttacagcaaaaacaaagtttggcacgtgaaggcgtggca Mask Tandem Repeat Region ================================================ tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Find is-nt database================================================ Query_seq: AA00550:AA00551|AA00550:AA00551:ferredoxin-type protein:hypothetical protein:->->:377262..377364 103 tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00550:AA00551|AA00550:AA00551:ferredoxin-type protein:hypothetical protein:->->:377262..377364 103 tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00550:AA00551|AA00550:AA00551:ferredoxin-type protein:hypothetical protein:->->:377262..377364 103 tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Predict ORF larger than 30AA ================================================ tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta 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================================================ tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00550:AA00551|AA00550:AA00551:ferredoxin-type protein:hypothetical protein:->->:377262..377364 103 tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: aact_AA00550_AA00551|ferredoxin-type protein:hypothetical protein|POSITIVE:POSITIVE|[377262,377364]|103 HSP 1 e-value: 4.0E-52 bit: 204.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta tgccacgccttcacgtgccaaactttgtttttgctgtaagccaagtaacaagccaagcccaacaagcccgcccgcagtacgggtggcgtctttgagaaattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCCACGCCUUCACGUGCCAAACUUUGUUUUUGCUGUAAGCCAAGUAACAAGCCAAGCCCAACAAGCCCGCCCGCAGUACGGGUGGCGUCUUUGAGAAAUUUA ((.((((......)))).))..(((.(((((((((........))))).)))).))).....((((((((((((.....))))))).))..)))......... (-25.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUUUCUCAAAGACGCCACCCGUACUGCGGGCGGGCUUGUUGGGCUUGGCUUGUUACUUGGCUUACAGCAAAAACAAAGUUUGGCACGUGAAGGCGUGGCA ................(((((((....(((((.((((((((((..(((.((((........))))...)))...))).))))))).).))))..)).))))). (-32.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 492 75 31 108 62 aact:AA00329|5end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_222737..222967_POSITIVE 454 97 52 207 159 aact:AA00013|5end_hypothetical_protein_6695..6925_POSITIVE 398 89 53 105 69 aact:AA00458|5end_nickel-binding_periplasmic_protein_319374..319604_POSITIVE 379 91 51 172 125 aact:AA01755|5end_cobalt_membrane_transport_protein_1185825..1186055_POSITIVE 378 90 49 149 99 aact:AA01355|5end_large_subunit_pseudouridylate_synthase_D_917228..917458_POSITIVE 372 94 52 211 167 aact:AA01421|5end_phosphoglycolate_phosphatase_955055..955285_POSITIVE 370 77 36 223 184 aact:AA00292|5end_dihydrofolate_reductase_201800..202030_POSITIVE 370 77 36 138 99 aact:AA00291|5end_hypothetical_protein_201715..201945_POSITIVE 361 82 41 231 191 aact:AA00377|5end_acetyl-CoA_acetyltransferase_(Beta-ketothiolase,3-ketoacyl-CoA_thiolase)_253042..253272_POSITIVE 359 89 42 220 162 aact:AA02702|5end_succinyl-CoA_synthetase,_beta_chain_1884139..1884369_POSITIVE 353 88 50 55 24 aact:AA00473|5end_tryptophanyl-tRNA_synthetase_328996..329226_POSITIVE 350 92 51 145 93 aact:AA00379|5end_possible_membrane_protein_254882..255112_POSITIVE 348 90 59 61 20 aact:AA01688|5end_conserved_hypothetical_protein;_possible_membrane_protein_1139635..1139865_POSITIVE 348 86 52 161 123 aact:AA01295|5end_3-dehydroquinate_synthase_877272..877502_POSITIVE 348 89 41 171 122 aact:AA00413|5end_conserved_hypothetical_protein_280142..280372_POSITIVE 347 88 41 180 123 aact:AA00449|5end_conserved_hypothetical_protein_312996..313226_POSITIVE 344 79 31 152 95 aact:AA00077|5end_conserved_hypothetical_protein_(possible_periplasmic_binding_transport_protein)_56111..56341_POSITIVE 342 87 41 127 77 aact:AA01432|5end_lysophospholipase_L2_960715..960945_POSITIVE 342 89 42 221 171 aact:AA00937|5end_L-xylulokinase_646816..647046_POSITIVE 341 88 44 192 141 aact:AA01184|5end_hypothetical_protein_810838..811068_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 418 91 53 151 108 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 383 89 57 36 2 aact:AA00455|3end_lipoprotein_precursor_319385..319535_POSITIVE 361 77 32 135 92 aact:AA01062|3end_ribonuclease_PH_(RNase_PH)_736499..736649_POSITIVE 359 73 33 139 95 aact:AA01113|3end_transcriptional_regulator_(merR_family)_765249..765399_POSITIVE 352 38 1 52 3 aact:AA00161|3end_pilin_B_biogenesis_protein;_fimbrial_transcription_regulation_114870..115020_POSITIVE 347 92 52 51 3 aact:AA00378|3end_leucine-responsive_regulatory_protein_(transcription_regulator)_254868..255018_POSITIVE 342 87 41 83 33 aact:AA01431|3end_conserved_hypothetical_protein_(possible_hydrolase)_960751..960901_POSITIVE 336 89 49 86 30 aact:AA01053|3end_conserved_hypothetical_protein_733747..733897_POSITIVE 332 88 43 136 95 aact:AA03010|3end_thiophene_and_furan_oxidation_protein_2102534..2102684_POSITIVE 320 80 32 102 50 aact:AA01651|3end_hypothetical_protein_1120004..1120154_POSITIVE 319 88 52 61 16 aact:AA02366|3end_hypothetical_protein_1623252..1623402_POSITIVE 319 94 52 124 74 aact:AA02103|3end_D-alanyl-D-alanine-endopeptidase;_penicillin-binding_protein_7_1431784..1431934_POSITIVE 317 97 57 57 5 aact:AA01625|3end_riboflavin_synthase,_beta_chain_1100514..1100664_POSITIVE 317 76 36 151 117 aact:AA00290|3end_conserved_hypothetical_protein_201813..201963_POSITIVE 315 89 52 62 11 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 314 88 44 38 5 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 311 88 55 48 13 aact:AA00288|3end_conserved_hypothetical_protein_201347..201497_POSITIVE 310 85 53 86 51 aact:AA01059|3end_orotate_phosphoribosyltransferase_735773..735923_POSITIVE 307 87 55 140 104 aact:AA01264|3end_conserved_hypothetical_protein_862056..862206_POSITIVE 307 95 52 98 48 aact:AA01183|3end_conserved_hypothetical_protein_810902..811052_POSITIVE