Origin IGS: taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacaatgaaaaaaacattaaaaatgaccgcactcgctgttatctcggcttttgtattagcaggttgtgcacaagatacggcaaaaggagacgcccaattacaacaacaggcggtgatgggaattaactgg .........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 ccagttaattcccatcaccgcctgttgttgtaattgggcgtctccttttgccgtatcttgtgcacaacctgctaatacaaaagccgagataacagcgagtgcggtcatttttaatgtttttttcattgtgtcttccttttgctttgtgatagatcgctaaaaattatagcaagccttatttttaatcgcaccgtatttttatcggatataaataaggcatgactgaaaatcatgccttatttaacggattaattta Mask Tandem Repeat Region ================================================ taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacaatgaaaaaaacattaaaaatgaccgcactcgctgttatctcggcttttgtattagcaggttgtgcacaagatacggcaaaaggagacgcccaattacaacaacaggcggtgatgggaattaactgg Find is-nt database================================================ Query_seq: AA02935:AA02936|AA02935:AA02936:high-affinity zinc uptake system periplasmic binding protein:lipoprotein E precursor; outer membrane protein P4 precursor; acid phosphatase:->->:2055494..2055749 256 taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacaatgaaaaaaacattaaaaatgaccgcactcgctgttatctcggcttttgtattagcaggttgtgcacaagatacggcaaaaggagacgcccaattacaacaacaggcggtgatgggaattaactgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02935:AA02936|AA02935:AA02936:high-affinity zinc uptake system periplasmic binding protein:lipoprotein E precursor; outer membrane protein P4 precursor; acid phosphatase:->->:2055494..2055749 256 taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacaatgaaaaaaacattaaaaatgaccgcactcgctgttatctcggcttttgtattagcaggttgtgcacaagatacggcaaaaggagacgcccaattacaacaacaggcggtgatgggaattaactgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02935:AA02936|AA02935:AA02936:high-affinity zinc uptake system periplasmic binding protein:lipoprotein E precursor; outer membrane protein P4 precursor; acid phosphatase:->->:2055494..2055749 256 taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacaatgaaaaaaacattaaaaatgaccgcactcgctgttatctcggcttttgtattagcaggttgtgcacaagatacggcaaaaggagacgcccaattacaacaacaggcggtgatgggaattaactgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 131 Max: 256 Len: 126 Subject: UniRef90_P26093 Cluster: Lipoprotein E precursor; n=4; Haemophilus influenzae|Rep: Lipoprotein E precursor - Haemophilus influenzae HSP 1 e-value: 2.0E-7 bit: 57.0 Len: 126 Query Start:131 Query End:256 Subject Strand: null Subject Start: 1 Subject End: 46 .................................................................................................................................. M K K T L K M T A L A V I S A F V L A G C A Q D T A K G D A - - - - Q L Q Q Q A V M G I N W .................................................................................................................................. M K T T L K M T A L A A L S A F V L A G C G S H Q M K S E G H A N M Q L Q Q Q A V L G L N W taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 24 End: 131 ....................... M I F S H A L F I S D K N T V R L K I R L A I I F S D L S Q S K R K T Q ............................................................................................................................. Protein_Len: 49 Strand: + Start: 103 End: 249 ...................................................................................................... M Y H K A K G R H N E K N I K N D R T R C Y L G F C I S R L C T R Y G K R R R P I T T T G G D G N ....... Protein_Len: 50 Strand: + Start: 107 End: 256 .......................................................................................................... M T K Q K E D T M K K T L K M T A L A V I S A F V L A G C A Q D T A K G D A Q L Q Q Q A V M G I N W Protein_Len: 50 Strand: - Start: 100 End: 249 ................................................................................................... R D I V F C F S S V I F F V N F I V A S A T I E A K T N A P Q A C S V A F P S A W N C C C A T I P M ....... taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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================================================ taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 84 HP_score: -11.0 Tail_Score: -3.58305 Start: 18 End: 44 Full_Region: tttatcggatataaa taaggcatgact gaa aatcatgcctta tttaacggattaatt .................taaggcatgactgaaaatcatgcctta.................................................................................................................................................................................................................... TransTerm Strand: - Conf: 77 HP_score: -8.3 Tail_Score: -3.9243 Start: 21 End: 41 Full_Region: atcggatataaataa ggcatgact gaa aatcatgcc ttatttaacggatta ....................ggcatgactgaaaatcatgcc....................................................................................................................................................................................................................... TransTerm Strand: - Conf: 85 HP_score: -4.0 Tail_Score: -5.69379 Start: 141 End: 151 Full_Region: aacagcgagtgcggt catt ttt aatg tttttttcattgtgt ............................................................................................................................................catttttaatg......................................................................................................... Find igs database================================================ Query_seq: AA02935:AA02936|AA02935:AA02936:high-affinity zinc uptake system periplasmic binding protein:lipoprotein E precursor; outer membrane protein P4 precursor; acid phosphatase:->->:2055494..2055749 256 taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: aact_AA02935_AA02936|high-affinity zinc uptake system periplasmic binding protein:lipoprotein E precursor; outer membrane protein P4 precursor; acid phosphatase|POSITIVE:POSITIVE|[2055494,2055749]|256 HSP 1 e-value: 8.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacaca.............................................................................................................................. taaattaatccgttaaataaggcatgattttcagtcatgccttatttatatccgataaaaatacggtgcgattaaaaataaggcttgctataatttttagcgatctatcacaaagcaaaaggaagacaca.............................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUUAAUCCGUUAAAUAAGGCAUGAUUUUCAGUCAUGCCUUAUUUAUAUCCGAUAAAAAUACGGUGCGAUUAAAAAUAAGGCUUGCUAUAAUUUUUAGCGAUCUAUCACAAAGCAAAAGGAAGACACA ....(((((((..(((((((((((((((.....)))))))))))))))...(((.........))).).)))))).....(((.((((((.......)))))))))........................ (-30.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUGUCUUCCUUUUGCUUUGUGAUAGAUCGCUAAAAAUUAUAGCAAGCCUUAUUUUUAAUCGCACCGUAUUUUUAUCGGAUAUAAAUAAGGCAUGACUGAAAAUCAUGCCUUAUUUAACGGAUUAAUUUA ...........((((((..((((....))))..........))))))........((((((...(((((....)).)))...((((((((((((((.(....)))))))))))))))...)))))).... (-29.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 70 22 223 155 aact:AA00618|5end_molybdopterin_biosynthesis_protein_422984..423214_POSITIVE 295 127 81 206 158 aact:AA02777|5end_tRNA-guanine_transglycosylase_1941299..1941529_POSITIVE 262 41 9 196 161 aact:AA01757|5end_cobalt_transport_ATP-binding_protein_1187137..1187367_POSITIVE 261 70 21 79 30 aact:AA02838|5end_conserved_hypothetical_protein_1993016..1993246_POSITIVE 261 87 42 152 111 aact:AA02145|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1468602..1468832_POSITIVE 245 105 61 62 21 aact:AA01001|5end_conserved_hypothetical_protein_699004..699234_POSITIVE 241 55 19 208 173 aact:AA02616|5end_transcriptional_regulator_1823684..1823914_POSITIVE 239 109 64 76 25 aact:AA01968|5end_hypothetical_protein_1331738..1331968_POSITIVE 236 70 21 85 33 aact:AA02910|5end_ribonuclease_E_2036137..2036367_POSITIVE 236 87 44 54 15 aact:AA00592|5end_conserved_hypothetical_protein_(membrane/transport_protein)_405536..405766_POSITIVE 234 102 77 50 25 aact:AA01449|5end_prophage_CP4-57_integrase_970569..970799_POSITIVE 232 67 21 183 124 aact:AA00493|5end_hypothetical_protein_344663..344893_POSITIVE 231 43 3 127 89 aact:AA00782|5end_conserved_hypothetical_protein_538723..538953_POSITIVE 230 69 21 105 64 aact:AA00198|5end_conserved_hypothetical_protein_(Cytosine_deaminase-related_enzyme)_138039..138269_POSITIVE 228 103 65 193 151 aact:AA02457|5end_conserved_hypothetical_protein_1695320..1695550_POSITIVE 228 129 81 213 169 aact:AA01015|5end_met_repressor_710511..710741_POSITIVE 227 107 61 205 142 aact:AA02368|5end_conserved_hypothetical_protein_1623544..1623774_POSITIVE 225 41 5 104 72 aact:AA01432|5end_lysophospholipase_L2_960715..960945_POSITIVE 225 44 8 169 126 aact:AA00545|5end_glutathionylspermidine_synthetase;amidase_373607..373837_POSITIVE 222 102 64 216 184 aact:AA00873|5end_Tadz_protein_604459..604689_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 377 48 14 77 43 aact:AA02935|3end_high-affinity_zinc_uptake_system_periplasmic_binding_protein_2055433..2055583_POSITIVE 312 106 62 57 4 aact:AA02531|3end_conserved_hypothetical_protein_1759341..1759491_POSITIVE 302 70 22 130 62 aact:AA00616|3end_phosphatidate_cytidylyltransferase_422971..423121_POSITIVE 261 87 42 149 108 aact:AA02144|3end_iron_(III)_ABC_transporter,_permease_protein_1468679..1468829_POSITIVE 241 55 19 145 110 aact:AA02615|3end_conserved_hypothetical_protein_1823701..1823851_POSITIVE 228 129 81 55 11 aact:AA01014|3end_UTP-glucose-1-phosphate_uridylyltransferase_710433..710583_POSITIVE 225 41 5 60 28 aact:AA01431|3end_conserved_hypothetical_protein_(possible_hydrolase)_960751..960901_POSITIVE 221 129 81 128 78 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 217 89 61 127 98 aact:AA02367|3end_conserved_hypothetical_protein_1623580..1623730_POSITIVE 217 70 21 95 38 aact:AA01426|3end_threonine_deaminase_(dehydratase)_958655..958805_POSITIVE 216 55 18 132 89 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 215 69 21 57 2 aact:AA01767|3end_conserved_hypothetical_protein_1192961..1193111_POSITIVE 214 40 8 63 20 aact:AA01059|3end_orotate_phosphoribosyltransferase_735773..735923_POSITIVE 214 105 64 80 42 aact:AA00576|3end_conserved_hypothetical_protein_(possible_translation_factor)_394648..394798_POSITIVE 214 56 20 135 99 aact:AA00459|3end_hypothetical_protein_321089..321239_POSITIVE 212 68 21 108 62 aact:AA00173|3end_hypothetical_protein_123137..123287_POSITIVE 211 40 8 150 124 aact:AA02319|3end_nitrogen_regulatory_IIA_protein_1584505..1584655_POSITIVE 210 89 52 131 82 aact:AA01861|3end_phosphomethylpyrimidine_kinase_1252107..1252257_POSITIVE 210 105 82 121 97 aact:AA01067|3end_30S_ribosomal_protein_S2_739697..739847_POSITIVE 210 41 4 134 99 aact:AA00419|3end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284911..285061_POSITIVE