Origin IGS: tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattttgacataacatgtttgtctctaagcttaaaaacagtcttatgcttccccaaaacagagacatagcgcgtaaaatataaagaagaaaacgaggaagacaaa Mask Tandem Repeat Region ================================================ tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Find is-nt database================================================ Query_seq: TF3101:TF3102|TF3101:TF3102:hypothetical protein:hypothetical protein:->->:3332720..3332825 106 tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3101:TF3102|TF3101:TF3102:hypothetical protein:hypothetical protein:->->:3332720..3332825 106 tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3101:TF3102|TF3101:TF3102:hypothetical protein:hypothetical protein:->->:3332720..3332825 106 tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 2 End: 106 . M S S S F S S L Y F T R Y V S V L G K H K T V F K L R D K H V M S K L tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta 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================================================ tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF3101:TF3102|TF3101:TF3102:hypothetical protein:hypothetical protein:->->:3332720..3332825 106 tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: tfor_TF3101_TF3102|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3332720,3332825]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta tttgtcttcctcgttttcttctttatattttacgcgctatgtctctgttttggggaagcataagactgtttttaagcttagagacaaacatgttatgtcaaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGUCUUCCUCGUUUUCUUCUUUAUAUUUUACGCGCUAUGUCUCUGUUUUGGGGAAGCAUAAGACUGUUUUUAAGCUUAGAGACAAACAUGUUAUGUCAAAAUUA ((((.(...(.(((.................))).)...((((((((..((..(((((((......))))))).))..))))))))..........).)))).... (-15.53) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUUGACAUAACAUGUUUGUCUCUAAGCUUAAAAACAGUCUUAUGCUUCCCCAAAACAGAGACAUAGCGCGUAAAAUAUAAAGAAGAAAACGAGGAAGACAAA .............((.(((((((((((((((.(((........))).)))).........))))))).)))).))............................... (-13.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 79 44 147 108 tfor:TF2192|5end_possible__outer_membrane_protein_2366392..2366622_POSITIVE 301 50 4 203 161 tfor:TF3094|5end_translation_elongation_factor_Ts_3326122..3326352_POSITIVE 295 48 1 218 176 tfor:TF1485|5end_conserved_hypothetical_protein_1581871..1582101_POSITIVE 293 59 13 60 16 tfor:TF1174|5end_ABC_transporter,_permease_component_1256584..1256814_POSITIVE 289 78 32 222 167 tfor:TF0890|5end_transfer_region-related_protein,_TraQ_940014..940244_POSITIVE 281 55 18 181 141 tfor:TF2566|5end_50S_ribosomal_protein_L5_2740303..2740533_POSITIVE 279 43 1 99 39 tfor:TF0267|5end_conserved_hypothetical_protein_295803..296033_POSITIVE 273 98 51 123 81 tfor:TF2139|5end_hypothetical_protein_2315661..2315891_POSITIVE 273 72 34 72 30 tfor:TF1947|5end_conserved_hypothetical_protein_2095521..2095751_POSITIVE 266 50 8 219 164 tfor:TF1227|5end_hypothetical_protein_1313747..1313977_POSITIVE 266 47 3 198 150 tfor:TF0480|5end_ornithine_carbamoyltransferase_498550..498780_POSITIVE 265 60 13 185 131 tfor:TF2256|5end_transfer_region-related_protein,_TraI_2427908..2428138_POSITIVE 263 46 3 101 49 tfor:TF2312|5end_conserved_hypothetical_protein;_possible_glycosyl_transferase_2471537..2471767_POSITIVE 261 68 33 228 187 tfor:TF0433|5end_60_kDa_inner_membrane_protein_453357..453587_POSITIVE 260 60 32 83 58 tfor:TF0432|5end_3-deoxy-manno-octulosonate_cytidylyltransferase_452531..452761_POSITIVE 258 59 12 194 143 tfor:TF2877|5end_regulatory_protein_3065601..3065831_POSITIVE 258 68 34 46 8 tfor:TF0888|5end_transfer_region-related_protein,_TraN_938392..938622_POSITIVE 251 58 11 131 82 tfor:TF3009|5end_RNA_polymerase_ECF-type_sigma_factor_3229093..3229323_POSITIVE 251 65 42 51 24 tfor:TF0358|5end_hypothetical_protein_375616..375846_POSITIVE 246 59 11 168 125 tfor:TF1929|5end_conserved_hypothetical_protein_2076049..2076279_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 80 31 59 1 tfor:TF2615|3end_conserved_hypothetical_protein_2791209..2791359_POSITIVE 305 79 44 57 18 tfor:TF2191|3end_hypothetical_protein_2366382..2366532_POSITIVE 293 59 13 47 3 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 273 72 34 72 30 tfor:TF1946|3end_membrane_protein;_spore_maturation-like_protein_2095601..2095751_POSITIVE 266 50 8 83 28 tfor:TF1225|3end_conserved_hypothetical_protein_1313691..1313841_POSITIVE 263 46 3 96 44 tfor:TF2311|3end_conserved_hypothetical_protein_2471612..2471762_POSITIVE 263 58 13 151 104 tfor:TF2255|3end_transfer_region-related_protein,_TraH_2427961..2428111_POSITIVE 253 59 33 148 116 tfor:TF0432|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_453366..453516_POSITIVE 251 65 42 46 19 tfor:TF0357|3end_lysyl_endopeptidase_375691..375841_POSITIVE 245 70 35 44 5 tfor:TF1024|3end_50S_ribosomal_protein_L19_1082381..1082531_POSITIVE 244 44 6 73 30 tfor:TF0306|3end_transglutaminase-like_enzyme/cysteine_protease_332749..332899_POSITIVE 243 56 11 64 18 tfor:TF0238|3end_outer_membrane_protein_268957..269107_POSITIVE 242 67 24 53 7 tfor:TF2103|3end_transposase_2275417..2275567_POSITIVE 242 50 5 87 43 tfor:TF0379|3end_conserved_hypothetical_protein,_nif3_family_400632..400782_POSITIVE 242 67 24 53 7 tfor:TF0352|3end_transposase_element_371527..371677_POSITIVE 241 58 12 60 23 tfor:TF0167|3end_conserved_hypothetical_protein_178234..178384_POSITIVE 239 59 11 100 40 tfor:TF2354|3end_dihydropteroate_synthase_2519490..2519640_POSITIVE 237 59 25 148 101 tfor:TF1909|3end_cobalamin_(5`-phosphate)_synthase_2064075..2064225_POSITIVE 237 56 11 131 84 tfor:TF1739|3end_possible_sulfatase_1868604..1868754_POSITIVE 237 78 35 57 17 tfor:TF1701|3end_transcriptional_regulator_1821785..1821935_POSITIVE