Origin IGS: taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acgtttaaatcctttccaattttatttatatcatcgcggggacaaaggtacgggataatttccaatatccattcagaaaaataaagttttaagtaacggctttaccggaaagcgccctttgcaaaaagccaccacccaccatattttcaaagatataccacatta Mask Tandem Repeat Region ================================================ taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Find is-nt database================================================ Query_seq: TF2321:TF2322|TF2321:TF2322:hypothetical protein:conserved hypothetical protein; possible lipoprotein:->->:2482718..2482882 165 taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2321:TF2322|TF2321:TF2322:hypothetical protein:conserved hypothetical protein; possible lipoprotein:->->:2482718..2482882 165 taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2321:TF2322|TF2321:TF2322:hypothetical protein:conserved hypothetical protein; possible lipoprotein:->->:2482718..2482882 165 taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 3 End: 101 .. H P I D K F I H H T T A K Q L P R K G T F G N S L V K N K Q I S M ................................................................ taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt 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================================================ taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2321:TF2322|TF2321:TF2322:hypothetical protein:conserved hypothetical protein; possible lipoprotein:->->:2482718..2482882 165 taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Intra-Species Hit: Count: 1 Min: 1 Max: 165 Len: 165 Subject: tfor_TF2321_TF2322|hypothetical protein:conserved hypothetical protein; possible lipoprotein|POSITIVE:POSITIVE|[2482718,2482882]|165 HSP 1 e-value: 7.0E-89 bit: 327.0 Len: 165 Query Start:1 Query End:165 Subject Strand: POSITIVE Subject Start: 1 Subject End: 165 taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt taatgtggtatatctttgaaaatatggtgggtggtggctttttgcaaagggcgctttccggtaaagccgttacttaaaactttatttttctgaatggatattggaaattatcccgtacctttgtccccgcgatgatataaataaaattggaaaggatttaaacgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGUGGUAUAUCUUUGAAAAUAUGGUGGGUGGUGGCUUUUUGCAAAGGGCGCUUUCCGGUAAAGCCGUUACUUAAAACUUUAUUUUUCUGAAUGGAUAUUGGAAAUUAUCCCGUACCUUUGUCCCCGCGAUGAUAUAAAUAAAAUUGGAAAGGAUUUAAACGU ......(((((.((...(((((((.(((.(((..((((((((((.((((....)))).))).)))))))..)))....))).)))))))..))..(((((.(....).))))).)))))...((((...((((............))))....))))........ (-34.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGUUUAAAUCCUUUCCAAUUUUAUUUAUAUCAUCGCGGGGACAAAGGUACGGGAUAAUUUCCAAUAUCCAUUCAGAAAAAUAAAGUUUUAAGUAACGGCUUUACCGGAAAGCGCCCUUUGCAAAAAGCCACCACCCACCAUAUUUUCAAAGAUAUACCACAUUA ..........................((((((.....(....)...(((...(((((........)))))...........................((((((...(.((((....)))).)..)))))).......)))...........))))))........ (-23.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 387 69 25 50 12 tfor:TF1417|5end_conserved_hypothetical_protein_1499544..1499774_POSITIVE 385 70 25 227 187 tfor:TF1874|5end_conserved_hypothetical_protein_2028060..2028290_POSITIVE 385 70 25 227 187 tfor:TF1132|5end_conserved_hypothetical_protein_1208926..1209156_POSITIVE 360 69 27 173 133 tfor:TF1352|5end_polysaccharide_deacetylase-like_protein_1432006..1432236_POSITIVE 352 60 11 209 148 tfor:TF1194|5end_glycogen_debranching_enzyme_1276627..1276857_POSITIVE 350 69 26 222 179 tfor:TF2225|5end_CTn_excision_protein_2394935..2395165_POSITIVE 350 70 25 216 171 tfor:TF0937|5end_ATPase,__AAA+_class_978390..978620_POSITIVE 348 70 23 221 183 tfor:TF0201|5end_permease,_major_facilitator_superfamily_226041..226271_POSITIVE 347 69 26 228 192 tfor:TF0096|5end_tRNA-guanine_transglycosylase_(queuine_tRNA-ribosyltransferase)_106971..107201_POSITIVE 346 69 26 179 135 tfor:TF1467|5end_conserved_hypothetical_protein_1557011..1557241_POSITIVE 344 69 28 177 135 tfor:TF2402|5end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2574582..2574812_POSITIVE 343 67 24 186 136 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 342 60 11 176 124 tfor:TF0723|5end_possible_aspartate_aminotransferase_774234..774464_POSITIVE 341 69 24 229 190 tfor:TF3126|5end_glycosyltransferase,_group_2_family_3360439..3360669_POSITIVE 335 68 31 179 134 tfor:TF2247|5end_transfer_region-related_protein,_TraA_2421463..2421693_POSITIVE 334 69 23 65 23 tfor:TF1797|5end_SNF_family_transporter_1937136..1937366_POSITIVE 333 61 23 62 18 tfor:TF1624|5end_carboxyl-terminal_protease_1737252..1737482_POSITIVE 329 68 22 88 37 tfor:TF0813|5end_glycosyl_hydrolase,_secreted_870677..870907_POSITIVE 327 69 30 41 5 tfor:TF2079|5end_permease_2245585..2245815_POSITIVE 327 70 23 215 161 tfor:TF1823|5end_xanthan_lyase_XalB_precursor_1969153..1969383_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 413 70 23 45 5 tfor:TF2058|3end_possible_ATP-dependent_DNA_helicase_2223798..2223948_POSITIVE 360 69 27 137 97 tfor:TF1351|3end_conserved_hypothetical_protein_1432050..1432200_POSITIVE 355 76 31 63 18 tfor:TF2321|3end_hypothetical_protein_2482657..2482807_POSITIVE 341 70 26 118 55 tfor:TF1247|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_1330928..1331078_POSITIVE 334 69 23 65 23 tfor:TF1796|3end_ABC_transporter,_ATP-binding_protein_1937216..1937366_POSITIVE 333 61 23 62 18 tfor:TF1623|3end_5-formyltetrahydrofolate_cyclo-ligase_1737332..1737482_POSITIVE 329 68 22 55 4 tfor:TF0811|3end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_870724..870874_POSITIVE 326 82 49 87 41 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 324 70 24 132 99 tfor:TF2771|3end_undecaprenol_kinase,_bacitracin_resistance_protein_2957448..2957598_POSITIVE 322 59 13 85 53 tfor:TF2845|3end_hypothetical_protein_3034757..3034907_POSITIVE 321 89 44 84 33 tfor:TF2145|3end_conserved_hypothetical_protein;_possible_rhodanese-domain_protein_2320230..2320380_POSITIVE 320 75 36 43 11 tfor:TF2237|3end_two-component_system_response_regulator_involved_in_CTn_2413893..2414043_POSITIVE 318 70 24 150 97 tfor:TF1730|3end_diaminopimelate_decarboxylase_1855907..1856057_POSITIVE 317 66 42 111 91 tfor:TF0098|3end_permease_109280..109430_POSITIVE 315 69 24 141 88 tfor:TF2439|3end_conserved_hypothetical_protein_2616930..2617080_POSITIVE 310 68 29 59 16 tfor:TF2012|3end_conserved_hypothetical_protein_2168720..2168870_POSITIVE 307 63 25 137 89 tfor:TF1181|3end_methylated-DNA--[protein]-cysteine_S-methyltransferase_1267991..1268141_POSITIVE 307 58 25 51 16 tfor:TF0838|3end_conserved_hypothetical_protein_890512..890662_POSITIVE 304 62 27 80 36 tfor:TF1834|3end_3-isopropylmalate_dehydrogenase_1984311..1984461_POSITIVE 304 69 22 150 101 tfor:TF0815|3end_conserved_hypothetical_protein_873974..874124_POSITIVE