Origin IGS: aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta .........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 taatcaatttatgattattttttcttcatttttatgtgtaaaatgtgatctgtatcagaaaattggaacaaaaaagtgaacttctgattgacactattatttttctttgccaagattgcgaggcttcaaaaaggaagtagcttgaactcttcatcatcaagtgaagagttcaatttttatcctataacaagtgatttctgaaaaggaatgaagatt Mask Tandem Repeat Region ================================================ aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Find is-nt database================================================ Query_seq: AA00661:AA00662|AA00661:AA00662:outer membrane protein:cystathionine beta-lyase:->->:454592..454807 216 aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00661:AA00662|AA00661:AA00662:outer membrane protein:cystathionine beta-lyase:->->:454592..454807 216 aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00661:AA00662|AA00661:AA00662:outer membrane protein:cystathionine beta-lyase:->->:454592..454807 216 aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 57 End: 182 ........................................................ M M M K S S S Y F L F E A S Q S W Q R K I I V S I R S S L F C S N F L I Q I T F Y T .................................. Protein_Len: 33 Strand: + Start: 101 End: 199 .................................................................................................... M L A K K N N S V N Q K F T F L F Q F S D T D H I L H I K M K K K ................. Protein_Len: 31 Strand: - Start: 80 End: 172 ............................................................................... K R K S A E C D Q C L F I I T D I L L E S K Q E L K R I C I M ............................................ Protein_Len: 37 Strand: - Start: 19 End: 129 .................. F D S T I P Y F N F E E S S S S S N L S S G K Q L R A I K A F F F L L T M ....................................................................................... aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta 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: 83 Start: 101 End: 130 ....................................................................................................ATTGACACTATTATTTTTCTTTGCCAAGAT...................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 44 HP_score: -3.4 Tail_Score: -2.9838 Start: 42 End: 77 Full_Region: TTGTTATAGGATAAA AATTGAACTCTTCA CTTGATGA TGAAGAGTTCAAGC TACTTCCTTTTTGAA .........................................AATTGAACTCTTCACTTGATGATGAAGAGTTCAAGC........................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -11.1 Tail_Score: -4.95155 Start: 44 End: 75 Full_Region: caaaaaggaagtagc ttgaactcttcat catcaa gtgaagagttcaa tttttatcctataac ...........................................ttgaactcttcatcatcaagtgaagagttcaa............................................................................................................................................. Find igs database================================================ Query_seq: AA00661:AA00662|AA00661:AA00662:outer membrane protein:cystathionine beta-lyase:->->:454592..454807 216 aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Intra-Species Hit: Count: 1 Min: 1 Max: 216 Len: 216 Subject: aact_AA00661_AA00662|outer membrane protein:cystathionine beta-lyase|POSITIVE:POSITIVE|[454592,454807]|216 HSP 1 e-value: 1.0E-119 bit: 428.0 Len: 216 Query Start:1 Query End:216 Subject Strand: POSITIVE Subject Start: 1 Subject End: 216 aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta aatcttcattccttttcagaaatcacttgttataggataaaaattgaactcttcacttgatgatgaagagttcaagctacttcctttttgaagcctcgcaatcttggcaaagaaaaataatagtgtcaatcagaagttcacttttttgttccaattttctgatacagatcacattttacacataaaaatgaagaaaaaataatcataaattgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCUUCAUUCCUUUUCAGAAAUCACUUGUUAUAGGAUAAAAAUUGAACUCUUCACUUGAUGAUGAAGAGUUCAAGCUACUUCCUUUUUGAAGCCUCGCAAUCUUGGCAAAGAAAAAUAAUAGUGUCAAUCAGAAGUUCACUUUUUUGUUCCAAUUUUCUGAUACAGAUCACAUUUUACACAUAAAAAUGAAGAAAAAAUAAUCAUAAAUUGAUUA ..((((((((..(((((............(((.((((......(((((((((((((.....).))))))))))))......))))...))).(((..........)))...)))))......(((((.((((((((...((......))......))))))))...)).)))..............)))))))).....((((((.....)))))) (-47.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCAAUUUAUGAUUAUUUUUUCUUCAUUUUUAUGUGUAAAAUGUGAUCUGUAUCAGAAAAUUGGAACAAAAAAGUGAACUUCUGAUUGACACUAUUAUUUUUCUUUGCCAAGAUUGCGAGGCUUCAAAAAGGAAGUAGCUUGAACUCUUCAUCAUCAAGUGAAGAGUUCAAUUUUUAUCCUAUAACAAGUGAUUUCUGAAAAGGAAUGAAGAUU ((((((.....)))))).....(((((((((((((((.....))))))......(((((((((..(((.............)))..)))..((((.........((((((.......))))))........((((...((.(((((((((((((......))))))))))))).))...))))......))))..))))))....))))))))).. (-49.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 100 51 84 41 aact:AA01770|5end_hypothetical_protein_1193111..1193341_POSITIVE 261 99 56 134 87 aact:AA02526|5end_conserved_hypothetical_protein_1755225..1755455_POSITIVE 261 109 61 197 149 aact:AA01340|5end_possible_lipoprotein;_possible_HlyD_family_secretion_domain_protein;_possible_membrane_fusion_protein_905746..905976_POSITIVE 254 110 65 97 50 aact:AA00598|5end_hypothetical_protein_408080..408310_POSITIVE 251 100 51 49 4 aact:AA01911|5end_hypothetical_protein_1287791..1288021_POSITIVE 249 112 71 227 189 aact:AA00516|5end_autoinducer-2_production_protein_355931..356161_POSITIVE 241 99 60 118 77 aact:AA01423|5end_cell_division_protein_X,_ABC_system_permease_956668..956898_POSITIVE 239 96 52 179 124 aact:AA00592|5end_conserved_hypothetical_protein_(membrane/transport_protein)_405536..405766_POSITIVE 238 107 69 86 42 aact:AA02072|5end_conserved_hypothetical_protein_1408601..1408831_POSITIVE 234 100 57 116 62 aact:AA01628|5end_thiamin-monophosphate_kinase_1100888..1101118_POSITIVE 232 97 70 225 195 aact:AA01280|5end_groES_chaperonin_868163..868393_POSITIVE 231 108 75 228 198 aact:AA01765|5end_Mu-like_prophage_FluMu_transposase_A_1191756..1191986_POSITIVE 231 92 51 150 98 aact:AA00751|5end_galactoside_ABC_transporter,_ATP-binding_protein_515971..516201_POSITIVE 229 180 137 98 57 aact:AA01532|5end_hypothetical_protein_1028771..1029001_POSITIVE 225 137 94 145 99 aact:AA02687|5end_hydrogenase-4_component_D_1872521..1872751_POSITIVE 224 117 72 43 4 aact:AA01642|5end_possible_iron(III)_ABC_transporter_1110970..1111200_POSITIVE 224 108 64 164 111 aact:AA01212|5end_hypothetical_protein_829614..829844_POSITIVE 222 110 61 216 158 aact:AA01563|5end_transketolase_isozyme_1_1046969..1047199_POSITIVE 222 99 59 118 62 aact:AA01196|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase_820090..820320_POSITIVE 220 109 72 47 6 aact:AA01954|5end_excinuclease_ABC,_subunit_C_1320468..1320698_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 295 109 70 148 105 aact:AA01279|3end_phage_exclusion-related_protein_868153..868303_POSITIVE 263 75 34 47 6 aact:AA00661|3end_outer_membrane_protein_454531..454681_POSITIVE 261 99 56 131 84 aact:AA02525|3end_conserved_hypothetical_protein_1755302..1755452_POSITIVE 254 110 65 94 47 aact:AA00596|3end_uridylate_kinase_408157..408307_POSITIVE 253 111 71 59 16 aact:AA00514|3end_hypothetical_protein_355838..355988_POSITIVE 241 99 60 106 65 aact:AA01422|3end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956736..956886_POSITIVE 239 96 52 70 15 aact:AA00591|3end_ABC_transporter,_ATP-binding_protein_405507..405657_POSITIVE 234 100 57 94 40 aact:AA01626|3end_N_utilization_substance_protein_B_1100946..1101096_POSITIVE 231 108 75 90 60 aact:AA01764|3end_hypothetical_protein_1191698..1191848_POSITIVE 231 92 51 72 20 aact:AA00750|3end_periplasmic_D-galactose-binding_ABC_transport_protein_515973..516123_POSITIVE 229 180 137 124 83 aact:AA01531|3end_hypothetical_protein_1028877..1029027_POSITIVE 229 108 71 147 107 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 225 137 94 129 83 aact:AA02686|3end_hydrogenase_4_component_C_1872585..1872735_POSITIVE 223 110 61 112 59 aact:AA01212|3end_hypothetical_protein_829813..829963_POSITIVE 222 110 61 138 80 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE 222 99 59 137 81 aact:AA01195|3end_acyl_carrier_protein_820189..820339_POSITIVE 219 99 56 129 79 aact:AA02826|3end_conserved_hypothetical_protein_1987108..1987258_POSITIVE 217 170 126 148 99 aact:AA02190|3end_hydrogenase-2_component_protein_1493271..1493421_POSITIVE 216 176 135 120 79 aact:AA01342|3end_conserved_hypotheticl_protein_(possible_ribosomal_RNA_adenine_dimethylase)_911085..911235_POSITIVE 214 109 61 78 26 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE