Origin IGS: taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt .........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 actagatgttctccattgactgttttaaaattggaagaggtatttaacatgataatttttaaggaattattatcaattcttacctttttacactgcaatcggtactcaggtaattggacgtagcatacaggtttttatgtttcaagactgtgatcatattcacatttatgaaaacgattacatctttaatgtaaaaaatagttaaaatttagcgtta Mask Tandem Repeat Region ================================================ taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Find is-nt database================================================ Query_seq: AA00749:AA00750|AA00749:AA00750:galactose operon repressor (gal repressor):periplasmic D-galactose-binding ABC transport protein:->->:514827..515043 217 taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00749:AA00750|AA00749:AA00750:galactose operon repressor (gal repressor):periplasmic D-galactose-binding ABC transport protein:->->:514827..515043 217 taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00749:AA00750|AA00749:AA00750:galactose operon repressor (gal repressor):periplasmic D-galactose-binding ABC transport protein:->->:514827..515043 217 taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 10 End: 135 ......... M L T I F Y I K D V I V F I N V N M I T V L K H K N L Y A T S N Y L S T D C S V K R .................................................................................. Protein_Len: 32 Strand: + Start: 120 End: 215 ....................................................................................................................... M Q C K K V R I D N N S L K I I M L N T S S N F K T V N G E H L .. Protein_Len: 35 Strand: - Start: 98 End: 202 ................................................................................................. T W N G S Y R N C H L F T L I S L L E K F I I M N F V E E L K L V T M ............... Protein_Len: 35 Strand: - Start: 16 End: 120 ............... S N K V N F I Y D N E Y I H I H D C D Q F M F V Q I S R G I V Q T G M ................................................................................................. taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt 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================================================ taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00749:AA00750|AA00749:AA00750:galactose operon repressor (gal repressor):periplasmic D-galactose-binding ABC transport protein:->->:514827..515043 217 taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Intra-Species Hit: Count: 1 Min: 1 Max: 217 Len: 217 Subject: aact_AA00749_AA00750|galactose operon repressor (gal repressor):periplasmic D-galactose-binding ABC transport protein|POSITIVE:POSITIVE|[514827,515043]|217 HSP 1 e-value: 1.0E-120 bit: 430.0 Len: 217 Query Start:1 Query End:217 Subject Strand: POSITIVE Subject Start: 1 Subject End: 217 taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt taacgctaaattttaactattttttacattaaagatgtaatcgttttcataaatgtgaatatgatcacagtcttgaaacataaaaacctgtatgctacgtccaattacctgagtaccgattgcagtgtaaaaaggtaagaattgataataattccttaaaaattatcatgttaaatacctcttccaattttaaaacagtcaatggagaacatctagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGCUAAAUUUUAACUAUUUUUUACAUUAAAGAUGUAAUCGUUUUCAUAAAUGUGAAUAUGAUCACAGUCUUGAAACAUAAAAACCUGUAUGCUACGUCCAAUUACCUGAGUACCGAUUGCAGUGUAAAAAGGUAAGAAUUGAUAAUAAUUCCUUAAAAAUUAUCAUGUUAAAUACCUCUUCCAAUUUUAAAACAGUCAAUGGAGAACAUCUAGU ....((((...((((((..((((((((((......((((((((.(((((....(((((......)))))....)))))..............((((..((......))...)))).))))))))))))))))))........(((((((............))))))).))))))....(((.(((................)))))).....)))) (-33.49) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUAGAUGUUCUCCAUUGACUGUUUUAAAAUUGGAAGAGGUAUUUAACAUGAUAAUUUUUAAGGAAUUAUUAUCAAUUCUUACCUUUUUACACUGCAAUCGGUACUCAGGUAAUUGGACGUAGCAUACAGGUUUUUAUGUUUCAAGACUGUGAUCAUAUUCACAUUUAUGAAAACGAUUACAUCUUUAAUGUAAAAAAUAGUUAAAAUUUAGCGUUA ....((((((.....(((((((((((.......(((((((((......((((((((((.....)))))))))).......)))))))))..((((....))))......(((((((......(((((........)))))((((.((.(((((......))))).)).))))..))))))).............))))))))))).....)))))). (-44.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 269 128 87 227 179 aact:AA02538|5end_conserved_hypothetical_protein_1765187..1765417_POSITIVE 265 103 70 225 197 aact:AA02478|5end_PTS_system,_N-acetylglucosamine-specific_enzyme_IIABC_1713319..1713549_POSITIVE 254 146 109 73 32 aact:AA01266|5end_hypothetical_protein_862076..862306_POSITIVE 249 127 87 110 53 aact:AA00761|5end_conserved_hypothetical_protein_(possible_peptidase)_523554..523784_POSITIVE 247 140 98 39 4 aact:AA01875|5end_PTS_system,_glucose-specific_enzyme_II,_A_component_1262563..1262793_POSITIVE 243 126 91 46 4 aact:AA02337|5end_DNA_mismatch_repair_protein_1597350..1597580_POSITIVE 243 128 88 170 130 aact:AA01367|5end_tRNA_(Guanine-N(1)-)-methyltransferase_(M1G-methyltransferase)_923710..923940_POSITIVE 240 127 86 149 106 aact:AA00287|5end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200158..200388_POSITIVE 235 125 87 156 117 aact:AA00980|5end_hypothetical_protein_684970..685200_POSITIVE 234 119 79 196 155 aact:AA01715|5end_conserved_hypothetical_protein_1160480..1160710_POSITIVE 233 130 88 60 15 aact:AA01820|5end_high-affinity_zinc_uptake_system_ATP-binding_protein_1225103..1225333_POSITIVE 231 131 95 83 52 aact:AA02171|5end_polysialic_acid_capsule_expression_protein_1485084..1485314_POSITIVE 231 128 92 180 141 aact:AA02090|5end_glucose-1-phosphate_adenylyltransferase_1423162..1423392_POSITIVE 231 187 142 131 91 aact:AA00882|5end_hypothetical_protein_613452..613682_POSITIVE 230 139 93 74 15 aact:AA01866|5end_thiamin_ABC_transporter,_permease_protein_1253313..1253543_POSITIVE 228 115 75 74 31 aact:AA02006|5end_PEP--fructosephosphotransferase_system_repressor,_DeoR_family_1363930..1364160_POSITIVE 228 123 87 203 168 aact:AA01721|5end_hypothetical_protein_1163312..1163542_POSITIVE 228 123 87 169 134 aact:AA01720|5end_conserved_hypothetical_protein_1163278..1163508_POSITIVE 227 130 87 52 4 aact:AA02947|5end_riboflavin_biosynthesis_protein_2060871..2061101_POSITIVE 227 128 99 205 170 aact:AA01229|5end_50S_ribosomal_protein_L24_839222..839452_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 255 136 93 147 109 aact:AA01305|3end_conserved_hypothetical_protein_886520..886670_POSITIVE 254 146 109 89 48 aact:AA01265|3end_hypothetical_protein_862172..862322_POSITIVE 243 126 91 46 4 aact:AA02335|3end_6-O-methylguanine-DNA_methyltransferase_1597430..1597580_POSITIVE 243 128 88 101 61 aact:AA01366|3end_16S_rRNA_processing_protein_923721..923871_POSITIVE 234 119 79 138 97 aact:AA01711|3end_conserved_hypothetical_protein_1160502..1160652_POSITIVE 231 128 92 150 111 aact:AA02089|3end_glycogen_operon_protein_1423212..1423362_POSITIVE 231 187 142 84 44 aact:AA00881|3end_hypothetical_protein_613485..613635_POSITIVE 228 115 75 84 41 aact:AA02005|3end_vancomycin_sensitivity;_SanA_protein_1364020..1364170_POSITIVE 228 123 87 127 92 aact:AA01718|3end_DNA_polymerase_III,_chi_subunit_1163316..1163466_POSITIVE 228 130 88 46 2 aact:AA01301|3end_competence_protein_B_882095..882245_POSITIVE 228 127 88 151 114 aact:AA00335|3end_PTS_fructose-specific_IIBC_component_228230..228380_POSITIVE 226 124 89 69 25 aact:AA01127|3end_energy_transducer_protein_773520..773670_POSITIVE 224 126 86 65 22 aact:AA02723|3end_hypothetical_protein_1906453..1906603_POSITIVE 223 141 109 55 15 aact:AA01179|3end_beta-ketoacyl-ACP_reductase;_short-chain_alcohol_dehydrogenase_808801..808951_POSITIVE 222 142 110 61 32 aact:AA02078|3end_hypothetical_protein_1412793..1412943_POSITIVE 222 127 93 124 93 aact:AA00482|3end_hydrolase_(haloacid_dehalogenase-like)_(HAD_superfamily)_336484..336634_POSITIVE 221 127 88 101 66 aact:AA01336|3end_hypothetical_protein_904315..904465_POSITIVE 220 128 85 81 38 aact:AA00036|3end_transposase_29254..29404_POSITIVE 217 125 87 135 96 aact:AA01062|3end_ribonuclease_PH_(RNase_PH)_736499..736649_POSITIVE 216 210 168 103 51 aact:AA02060|3end_cardiolipin_synthase_1403490..1403640_POSITIVE