Origin IGS: taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attcgattatctattattgtttcatcttcttctattgttgggggcgcaagttagaaagaaaaaaggagaaacatgattttatttctttttttcggatatcggatacgccccgaccggttta Mask Tandem Repeat Region ================================================ taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Find is-nt database================================================ Query_seq: TF1775:TF1776|TF1775:TF1776:oxidoreductase, Gfo/Idh/MocA family:urocanate hydratase:->->:1914679..1914799 121 taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1775:TF1776|TF1775:TF1776:oxidoreductase, Gfo/Idh/MocA family:urocanate hydratase:->->:1914679..1914799 121 taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1775:TF1776|TF1775:TF1776:oxidoreductase, Gfo/Idh/MocA family:urocanate hydratase:->->:1914679..1914799 121 taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: - Start: 3 End: 116 .. V P R P T D S I R F F S I F D H K E K K R E L K R G W C Y F F I F C Y Y I M ..... taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat 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================================================ taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1775:TF1776|TF1775:TF1776:oxidoreductase, Gfo/Idh/MocA family:urocanate hydratase:->->:1914679..1914799 121 taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Intra-Species Hit: Count: 1 Min: 1 Max: 121 Len: 121 Subject: tfor_TF1775_TF1776|oxidoreductase, Gfo/Idh/MocA family:urocanate hydratase|POSITIVE:POSITIVE|[1914679,1914799]|121 HSP 1 e-value: 3.0E-50 bit: 198.0 Len: 121 Query Start:1 Query End:121 Subject Strand: POSITIVE Subject Start: 1 Subject End: 121 taaaccggtcggggcgtatccgatatccgnnnnnnngaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat taaaccggtcggggcgtatccgatatccgaaaaaaagaaataaaatcatgtttctccttttttctttctaacttgcgcccccaacaatagaagaagatgaaacaataatagataatcgaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACCGGUCGGGGCGUAUCCGAUAUCCGAAAAAAAGAAAUAAAAUCAUGUUUCUCCUUUUUUCUUUCUAACUUGCGCCCCCAACAAUAGAAGAAGAUGAAACAAUAAUAGAUAAUCGAAU ..........((((((((..........((((((((((((((......)))))))..))))))).........))))))))........................................ (-23.31) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCGAUUAUCUAUUAUUGUUUCAUCUUCUUCUAUUGUUGGGGGCGCAAGUUAGAAAGAAAAAAGGAGAAACAUGAUUUUAUUUCUUUUUUUCGGAUAUCGGAUACGCCCCGACCGGUUUA .................................((((.(.((((((...(((.((..((((((((((((............)))))))))))).....)).))).)))))).).))))... (-23.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 47 3 100 56 tfor:TF3114|5end_hypothetical_protein_3349134..3349364_POSITIVE 332 47 3 80 36 tfor:TF3113|5end_hypothetical_protein_3349114..3349344_POSITIVE 331 48 2 167 124 tfor:TF0947|5end_extracellular_protease_990627..990857_POSITIVE 325 31 3 40 15 tfor:TF1778|5end_conserved_hypothetical_protein_1917712..1917942_POSITIVE 321 29 5 173 141 tfor:TF1243|5end_periplasmic_protease_1327243..1327473_POSITIVE 320 50 4 56 12 tfor:TF1245|5end_LemA_protein_1328822..1329052_POSITIVE 313 45 3 96 67 tfor:TF2192|5end_possible__outer_membrane_protein_2366392..2366622_POSITIVE 299 29 4 52 21 tfor:TF0119|5end_gluconate_aldolase_130577..130807_POSITIVE 296 30 4 57 32 tfor:TF0462|5end_possible_cobalamin_biosynthesis_precorrin-3_methylase_477600..477830_POSITIVE 295 31 6 48 18 tfor:TF2100|5end_hypothetical_protein_2273424..2273654_POSITIVE 292 31 6 79 52 tfor:TF2853|5end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040172..3040402_POSITIVE 291 30 5 91 56 tfor:TF0962|5end_possible_amidohydrolase_1011593..1011823_POSITIVE 290 29 6 188 162 tfor:TF1812|5end_tryptophan_synthase,_beta_chain_1952696..1952926_POSITIVE 288 30 4 228 194 tfor:TF2578|5end_30S_ribosomal_protein_S11_2746698..2746928_POSITIVE 287 26 5 230 210 tfor:TF0541|5end_conserved_hypothetical_protein_568473..568703_POSITIVE 283 79 34 158 122 tfor:TF0352|5end_transposase_element_371223..371453_POSITIVE 272 100 51 72 17 tfor:TF1793|5end_polyphosphate-selective_porin_O_1933256..1933486_POSITIVE 270 50 2 202 163 tfor:TF1437|5end_hypothetical_protein_1521940..1522170_POSITIVE 269 50 2 93 44 tfor:TF2207|5end_exo-alpha-sialidase_(neuraminidase)_2380907..2381137_POSITIVE 268 31 5 79 48 tfor:TF1174|5end_ABC_transporter,_permease_component_1256584..1256814_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 38 2 149 115 tfor:TF0946|3end_iron(III)_ABC_transporter,_periplasmic_iron-binding_protein_990698..990848_POSITIVE 292 31 6 48 21 tfor:TF2852|3end_conserved_hypothetical_protein_3040221..3040371_POSITIVE 291 30 5 91 56 tfor:TF0961|3end_translation_initiation_inhibitor,_endoribonuclease_activity_1011673..1011823_POSITIVE 283 79 34 81 45 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 283 29 5 31 1 tfor:TF0118|3end_5-keto-D-gluconate_5-reductase_130636..130786_POSITIVE 272 31 6 120 95 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE 271 30 7 37 18 tfor:TF2159|3end_conserved_hypothetical_protein_2336076..2336226_POSITIVE 270 50 2 49 10 tfor:TF1436|3end_phosphoglycolate_phosphatase_1521867..1522017_POSITIVE 269 50 2 93 44 tfor:TF2206|3end_conserved_hypothetical_protein;_possible_sugar_phosphate_isomerase/epimerase_2380987..2381137_POSITIVE 268 31 5 66 35 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 263 100 52 55 1 tfor:TF1792|3end_acid_phosphatase_1933319..1933469_POSITIVE 261 50 3 121 73 tfor:TF2734|3end_conserved_hypothetical_protein_2916738..2916888_POSITIVE 260 89 53 150 111 tfor:TF3042|3end_ferrous_iron_transport_protein_B_3271949..3272099_POSITIVE 260 79 50 109 67 tfor:TF1868|3end_conserved_hypothetical_protein;_possible_transposase_2023043..2023193_POSITIVE 259 31 5 54 20 tfor:TF2475|3end_GTP_pyrophosphokinase,_(p)ppGpp_synthetase_2654221..2654371_POSITIVE 257 29 4 104 73 tfor:TF0277|3end_outer_membrane_protein_305647..305797_POSITIVE 256 48 4 150 110 tfor:TF1938|3end_hypothetical_protein_2086270..2086420_POSITIVE 254 37 4 147 106 tfor:TF1628|3end_conserved_hypothetical_protein_1741576..1741726_POSITIVE 251 22 6 70 54 tfor:TF1880|3end_transposase_2033405..2033555_POSITIVE 250 29 1 124 91 tfor:TF2660|3end_hypothetical_protein_2833540..2833690_POSITIVE