Origin IGS: tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tccgttacttgactgcttgttgaaattcggcgcaaaggtagtgatttgaattgttatttgcttatggaatatcgtctattgttatgtgacggcacacgttgggtgtcacgttcggctttatgatcgatttgtttattgaagaaaaaattcgtatcgttca Mask Tandem Repeat Region ================================================ tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Find is-nt database================================================ Query_seq: TF0465:TF0466|TF0465:TF0466:cobalamin biosynthesis protein:amidophosphoribosyltransferase:->->:483974..484133 160 tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0465:TF0466|TF0465:TF0466:cobalamin biosynthesis protein:amidophosphoribosyltransferase:->->:483974..484133 160 tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0465:TF0466|TF0465:TF0466:cobalamin biosynthesis protein:amidophosphoribosyltransferase:->->:483974..484133 160 tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 7 End: 96 ...... M R I F S S I N K S I I K P N V T P N V C R H I T I D D I P ................................................................ Protein_Len: 36 Strand: - Start: 41 End: 148 ........................................ L A S R S V W R T G D C L L L R Y E M L L Y C N L D S G K R R I E V L M ............ tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga 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================================================ tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0465:TF0466|TF0465:TF0466:cobalamin biosynthesis protein:amidophosphoribosyltransferase:->->:483974..484133 160 tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: tfor_TF0465_TF0466|cobalamin biosynthesis protein:amidophosphoribosyltransferase|POSITIVE:POSITIVE |[483974,484133]|160 HSP 1 e-value: 6.0E-86 bit: 317.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga tgaacgatacgaattttttcttcaataaacaaatcgatcataaagccgaacgtgacacccaacgtgtgccgtcacataacaatagacgatattccataagcaaataacaattcaaatcactacctttgcgccgaatttcaacaagcagtcaagtaacgga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACGAUACGAAUUUUUUCUUCAAUAAACAAAUCGAUCAUAAAGCCGAACGUGACACCCAACGUGUGCCGUCACAUAACAAUAGACGAUAUUCCAUAAGCAAAUAACAAUUCAAAUCACUACCUUUGCGCCGAAUUUCAACAAGCAGUCAAGUAACGGA (((.((((........................)))).))).....(((.((.((((.......(((((....)))))..........((.((((.....(((((....................)))))...)))).))........)))).))..))). (-20.01) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCGUUACUUGACUGCUUGUUGAAAUUCGGCGCAAAGGUAGUGAUUUGAAUUGUUAUUUGCUUAUGGAAUAUCGUCUAUUGUUAUGUGACGGCACACGUUGGGUGUCACGUUCGGCUUUAUGAUCGAUUUGUUUAUUGAAGAAAAAAUUCGUAUCGUUCA ....((((((...(((..((((.....))))))).)))))).(((.((((((....(((....(((((..((((((((..(((((((((((.(........).))))))))..)))..)).)).))))...)))))....)))..)))))).)))..... (-32.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 90 45 58 5 tfor:TF0038|5end_conserved_hypothetical_protein_39907..40137_POSITIVE 314 89 44 215 161 tfor:TF0949|5end_conserved_hypothetical_protein_993863..994093_POSITIVE 308 80 33 198 127 tfor:TF0719|5end_hypothetical_protein_769798..770028_POSITIVE 308 110 61 218 166 tfor:TF0603|5end_glycosyltransferase_633811..634041_POSITIVE 306 72 45 169 143 tfor:TF3088|5end_conserved_hypothetical_protein_3322512..3322742_POSITIVE 306 88 45 67 22 tfor:TF2167|5end_hypothetical_protein_2342586..2342816_POSITIVE 306 88 45 67 22 tfor:TF2162|5end_thermolysin_precursor_2338669..2338899_POSITIVE 306 88 45 67 22 tfor:TF0367|5end_eukaryotic-like__metalloproteinase_384007..384237_POSITIVE 306 88 45 67 22 tfor:TF0351|5end_hypothetical_protein_370922..371152_POSITIVE 301 76 34 138 106 tfor:TF2455|5end_conserved_hypothetical_protein;_possible_membrane_protein_2631959..2632189_POSITIVE 298 77 35 160 104 tfor:TF2377|5end_orotidine_5'_phosphate_decarboxylase_2541799..2542029_POSITIVE 296 89 42 130 71 tfor:TF1257|5end_hypothetical_protein_1338118..1338348_POSITIVE 296 89 42 95 36 tfor:TF1256|5end_hypothetical_protein_1338083..1338313_POSITIVE 296 160 116 57 15 tfor:TF0690|5end_preprotein_translocase_subunit_735243..735473_POSITIVE 293 71 44 34 7 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 293 74 34 93 31 tfor:TF0789|5end_preprotein_translocase,_secDF_family_841293..841523_POSITIVE 291 160 111 223 167 tfor:TF2127|5end_hypothetical_protein_2304038..2304268_POSITIVE 284 72 44 156 115 tfor:TF0330|5end_excinuclease_ABC,_subunit_A_356196..356426_POSITIVE 281 110 63 81 26 tfor:TF2123|5end_conserved_hypothetical_protein;_TPR-repeat_protein_2297268..2297498_POSITIVE 281 76 33 189 147 tfor:TF1246|5end_protease,_with_chaperone_function_1329390..1329620_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 90 45 62 9 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 314 74 35 45 5 tfor:TF1834|3end_3-isopropylmalate_dehydrogenase_1984311..1984461_POSITIVE 309 160 111 110 45 tfor:TF2126|3end_S-adenosylhomocysteine_hydrolase_2303996..2304146_POSITIVE 302 148 108 78 40 tfor:TF2583|3end_possible_ABC_transporter,__permease_component_2751026..2751176_POSITIVE 301 76 34 124 92 tfor:TF2454|3end_D-alanyl-D-alanine_dipeptidase_2632025..2632175_POSITIVE 298 77 35 126 70 tfor:TF2375|3end_conserved_hypothetical_protein_2541845..2541995_POSITIVE 296 89 42 83 24 tfor:TF1255|3end_conserved_hypothetical_protein_1338151..1338301_POSITIVE 293 71 44 43 16 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 293 74 34 90 28 tfor:TF0788|3end_protein-export_membrane_protein_841370..841520_POSITIVE 291 158 121 142 105 tfor:TF3055|3end_hypothetical_protein_3279034..3279184_POSITIVE 284 72 44 120 79 tfor:TF0329|3end_membrane-bound_lytic_murein_transglycosylase_D_356240..356390_POSITIVE 277 88 45 85 48 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 276 73 34 147 109 tfor:TF1550|3end_excinuclease_ABC,_subunit_B_1656951..1657101_POSITIVE 275 73 34 60 17 tfor:TF3135|3end_hypothetical_protein_3370074..3370224_POSITIVE 275 68 29 138 98 tfor:TF1548|3end_thiophene_and_furan_oxidation_protein_1653987..1654137_POSITIVE 271 97 51 124 72 tfor:TF3003|3end_hypothetical_protein_3220629..3220779_POSITIVE 270 72 37 45 15 tfor:TF1110|3end_conserved_hypothetical_protein_1180837..1180987_POSITIVE 270 105 63 60 19 tfor:TF0281|3end_hypothetical_protein_309159..309309_POSITIVE 266 71 45 77 41 tfor:TF3107|3end_hypothetical_protein_3338736..3338886_POSITIVE 266 76 33 147 106 tfor:TF1041|3end_dihydroorotate_dehydrogenase,_catalytic_subunit_1103020..1103170_POSITIVE