Origin IGS: ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaccattgacaattaaattacgctgaccgctgaaacgtttgcatctttggtcggaaaagcgtatttttgcagccggtttattctgaacgatttatattaacaaagaaacataaag Mask Tandem Repeat Region ================================================ ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Find is-nt database================================================ Query_seq: TF2437:TF2438|TF2437:TF2438:elongation factor P:hypothetical protein:->->:2615805..2615920 116 ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2437:TF2438|TF2437:TF2438:elongation factor P:hypothetical protein:->->:2615805..2615920 116 ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2437:TF2438|TF2437:TF2438:elongation factor P:hypothetical protein:->->:2615805..2615920 116 ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 25 End: 114 ........................ M V Q N K P A A K I R F S D Q R C K R F S G Q R N L I V N G .. ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta 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================================================ ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2437:TF2438|TF2437:TF2438:elongation factor P:hypothetical protein:->->:2615805..2615920 116 ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: tfor_TF2437_TF2438|elongation factor P:hypothetical protein|POSITIVE:POSITIVE|[2615805,2615920]|116 HSP 1 e-value: 8.0E-60 bit: 230.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta ctttatgtttctttgttaatataaatcgttcagaataaaccggctgcaaaaatacgcttttccgaccaaagatgcaaacgtttcagcggtcagcgtaatttaattgtcaatggtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUAUGUUUCUUUGUUAAUAUAAAUCGUUCAGAAUAAACCGGCUGCAAAAAUACGCUUUUCCGACCAAAGAUGCAAACGUUUCAGCGGUCAGCGUAAUUUAAUUGUCAAUGGUUA .((((((((........))))))))............(((((...(((((((((((((...(((.....(((((....)))))...)))..))))).))))..))))...))))). (-21.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCAUUGACAAUUAAAUUACGCUGACCGCUGAAACGUUUGCAUCUUUGGUCGGAAAAGCGUAUUUUUGCAGCCGGUUUAUUCUGAACGAUUUAUAUUAACAAAGAAACAUAAAG .((((.(((.(((......((((((..((((..((...........))..).)))...))))))...))))))..))))..((((....(((....))).....))))........ (-18.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 90 41 46 10 tfor:TF2846|5end_cobyric_acid_synthase_3034896..3035126_POSITIVE 322 90 41 212 160 tfor:TF0615|5end_mannose-1-phosphate_guanylyltransferase_648832..649062_POSITIVE 321 78 39 55 18 tfor:TF0287|5end_peptidase,_M23_family_315810..316040_POSITIVE 318 96 52 167 110 tfor:TF2248|5end_transfer_region-related_protein,_TraB_2422551..2422781_POSITIVE 310 88 41 173 129 tfor:TF2792|5end_30S_ribosomal_protein_S15_2977253..2977483_POSITIVE 305 89 43 126 85 tfor:TF1299|5end_conserved_hypothetical_protein_1380937..1381167_POSITIVE 305 69 25 52 9 tfor:TF0307|5end_conserved_hypothetical_protein_332783..333013_POSITIVE 304 95 55 51 12 tfor:TF2661|5end_hypothetical_protein_2833509..2833739_POSITIVE 303 89 41 163 121 tfor:TF0302|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_328641..328871_POSITIVE 298 88 42 157 114 tfor:TF3080|5end_conserved_hypothetical_protein_3310480..3310710_POSITIVE 294 90 41 219 167 tfor:TF2565|5end_50S_ribosomal_protein_L24_2739986..2740216_POSITIVE 294 95 54 64 20 tfor:TF2033|5end_conserved_hypothetical_protein_2191529..2191759_POSITIVE 293 98 55 99 50 tfor:TF0039|5end_conserved_hypothetical_protein_41407..41637_POSITIVE 292 94 56 77 36 tfor:TF2021|5end_hypothetical_protein_2177702..2177932_POSITIVE 290 96 57 183 144 tfor:TF3119|5end_conserved_hypothetical_protein_3352723..3352953_POSITIVE 287 97 55 197 143 tfor:TF0248|5end_hypothetical_protein_278249..278479_POSITIVE 286 98 55 204 160 tfor:TF2520|5end_conserved_hypothetical_protein_2698917..2699147_POSITIVE 286 88 41 56 14 tfor:TF2218|5end_two-component_system_response_regulator_2390162..2390392_POSITIVE 286 97 55 81 32 tfor:TF0236|5end_multidrug_resistance_protein_261779..262009_POSITIVE 285 97 55 88 42 tfor:TF2187|5end_conserved_hypothetical_protein_2361693..2361923_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 90 41 55 19 tfor:TF2847|3end_hypothetical_protein_3034985..3035135_POSITIVE 324 102 62 70 18 tfor:TF0120|3end_hexouronate_transporter_132811..132961_POSITIVE 310 88 41 59 15 tfor:TF2791|3end_GTP-binding_protein_TypA_2977219..2977369_POSITIVE 288 110 70 59 26 tfor:TF1660|3end_hypothetical_protein_1775600..1775750_POSITIVE 286 97 55 71 22 tfor:TF0235|3end_hypothetical_protein_261849..261999_POSITIVE 283 90 41 143 95 tfor:TF0061|3end_hypothetical_protein_65006..65156_POSITIVE 282 69 27 44 7 tfor:TF1220|3end_conserved_hypothetical_protein_1307797..1307947_POSITIVE 280 107 62 70 9 tfor:TF0328|3end_conserved_hypothetical_protein_355266..355416_POSITIVE 279 94 52 151 104 tfor:TF2247|3end_transfer_region-related_protein,_TraA_2422625..2422775_POSITIVE 273 74 38 87 43 tfor:TF2396|3end_dimethyladenosine_transferase_2568617..2568767_POSITIVE 273 75 41 146 117 tfor:TF1801|3end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_1945669..1945819_POSITIVE 273 89 42 131 83 tfor:TF0308|3end_hypothetical_protein_334082..334232_POSITIVE 271 49 10 118 83 tfor:TF2103|3end_transposase_2275417..2275567_POSITIVE 271 96 53 104 62 tfor:TF1729|3end_aspartokinase_1854718..1854868_POSITIVE 271 49 10 118 83 tfor:TF0352|3end_transposase_element_371527..371677_POSITIVE 270 84 41 80 25 tfor:TF1177|3end_conserved_hypothetical_protein;_possible_ribosomal_protein_S1_1264773..1264923_POSITIVE 269 95 51 70 24 tfor:TF3121|3end_nicotinate_phosphoribosyltransferase_3356124..3356274_POSITIVE 266 100 52 141 100 tfor:TF1846|3end_hypothetical_protein_1997015..1997165_POSITIVE 266 100 52 131 90 tfor:TF1845|3end_hypothetical_protein_1997005..1997155_POSITIVE 266 97 58 83 44 tfor:TF1577|3end_hypothetical_protein_1686234..1686384_POSITIVE