Origin IGS: ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaattttcatttcctgaattaaagtacgatcttgttttttcatcacaagtaatagaacacgtacataatgttggtaattatttatgtagaataaatagaatgctaaaatcaggaggatgcttgattatcagtttgccaaacattataaaccctaattttatatgggggactttctttatatctactgatcgtctacgaaggcattctatggaaatgttgtcaaattataataaagtgcataatcatattaacgcatgggatgcatataattttgttaccttattggcttcgtgtggttttgaaatggaagcatacttaccaatagaaggagttgcccaaccttactttatatggaaaagaattcctataatagggaaatggctacctgcgtacaccaataaaaagaatcgtggaaagaaggggaattggtcatatacaatgagctttagattcaagaaagtaagagaggcatgtatcgaaaactatgattgaataaaatagttaa Mask Tandem Repeat Region ================================================ ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Find is-nt database================================================ Query_seq: TF2060:TF2061|TF2060:TF2061:glycosyltransferase:hypothetical protein:->->:2227035..2227540 506 ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2060:TF2061|TF2060:TF2061:glycosyltransferase:hypothetical protein:->->:2227035..2227540 506 ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2060:TF2061|TF2060:TF2061:glycosyltransferase:hypothetical protein:->->:2227035..2227540 506 ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 30 End: 161 ............................. M H A S L T F L N L K L I V Y D Q F P F F P R F F L L V Y A G S H F P I I G I L F H I K ......................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 45 Strand: + Start: 291 End: 425 .................................................................................................................................................................................................................................................................................................. M S I E C L R R R S V D I K K V P H I K L G F I M F G K L I I K H P P D F S I L F I L H K ................................................................................. Protein_Len: 39 Strand: + Start: 388 End: 504 ................................................................................................................................................................................................................................................................................................................................................................................................... M L L I L A F Y L F Y I N N Y Q H Y V R V L L L V M K K Q D R T L I Q E M K I .. Protein_Len: 56 Strand: - Start: 184 End: 351 ....................................................................................................................................................................................... Q Y T H K W K L V V R L W Y P L L I I H M G H T L I I I C K I I I Q C C K W L I G E Y V I L L Y L S L G G Y L M ........................................................................................................................................................... Protein_Len: 60 Strand: - Start: 17 End: 454 ................ N Y N S L M E M S H R R L R D T S I F F T G W I F N P N I I N P L S I I L C G G S K L M R N I R C L Y N G V N H V H E M .................................................... ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca 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================================================ ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 44 HP_score: -3.4 Tail_Score: -2.78596 Start: 141 End: 153 Full_Region: aaccttactttatat ggaa aagaa ttcc tataatagggaaatg ............................................................................................................................................ggaaaagaattcc................................................................................................................................................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: TF2060:TF2061|TF2060:TF2061:glycosyltransferase:hypothetical protein:->->:2227035..2227540 506 ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Intra-Species Hit: Count: 1 Min: 1 Max: 506 Len: 506 Subject: tfor_TF2060_TF2061|glycosyltransferase:hypothetical protein|POSITIVE:POSITIVE|[2227035,2227540]|506 HSP 1 e-value: 0.0 bit: 1003.0 Len: 506 Query Start:1 Query End:506 Subject Strand: POSITIVE Subject Start: 1 Subject End: 506 ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca ttaactattttattcaatcatagttttcgatacatgcctctcttactttcttgaatctaaagctcattgtatatgaccaattccccttctttccacgattctttttattggtgtacgcaggtagccatttccctattataggaattcttttccatataaagtaaggttgggcaactccttctattggtaagtatgcttccatttcaaaaccacacgaagccaataaggtaacaaaattatatgcatcccatgcgttaatatgattatgcactttattataatttgacaacatttccatagaatgccttcgtagacgatcagtagatataaagaaagtcccccatataaaattagggtttataatgtttggcaaactgataatcaagcatcctcctgattttagcattctatttattctacataaataattaccaacattatgtacgtgttctattacttgtgatgaaaaaacaagatcgtactttaattcaggaaatgaaaattca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAACUAUUUUAUUCAAUCAUAGUUUUCGAUACAUGCCUCUCUUACUUUCUUGAAUCUAAAGCUCAUUGUAUAUGACCAAUUCCCCUUCUUUCCACGAUUCUUUUUAUUGGUGUACGCAGGUAGCCAUUUCCCUAUUAUAGGAAUUCUUUUCCAUAUAAAGUAAGGUUGGGCAACUCCUUCUAUUGGUAAGUAUGCUUCCAUUUCAAAACCACACGAAGCCAAUAAGGUAACAAAAUUAUAUGCAUCCCAUGCGUUAAUAUGAUUAUGCACUUUAUUAUAAUUUGACAACAUUUCCAUAGAAUGCCUUCGUAGACGAUCAGUAGAUAUAAAGAAAGUCCCCCAUAUAAAAUUAGGGUUUAUAAUGUUUGGCAAACUGAUAAUCAAGCAUCCUCCUGAUUUUAGCAUUCUAUUUAUUCUACAUAAAUAAUUACCAACAUUAUGUACGUGUUCUAUUACUUGUGAUGAAAAAACAAGAUCGUACUUUAAUUCAGGAAAUGAAAAUUCA .....................((((((((.....(((((.(((((((((............(((..(((..(((.((((((......((.......))........)))))))))..)))..)))...............((((.....))))....)))))))))..)))))..((((.....(((.(((....))))))............((((((..((((((((..((.((((((((((((...))))....)))))))).)).))))))))............(((((.....))))).))))))..((((((.(((((.((((((((.((........(((((((((((......((((((((...........))))))))..))))))))))))).))))..)))))))))...............(((((((...(((......))).))))))).........))))))..........))))..)))))))).. (-93.34) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUUUUCAUUUCCUGAAUUAAAGUACGAUCUUGUUUUUUCAUCACAAGUAAUAGAACACGUACAUAAUGUUGGUAAUUAUUUAUGUAGAAUAAAUAGAAUGCUAAAAUCAGGAGGAUGCUUGAUUAUCAGUUUGCCAAACAUUAUAAACCCUAAUUUUAUAUGGGGGACUUUCUUUAUAUCUACUGAUCGUCUACGAAGGCAUUCUAUGGAAAUGUUGUCAAAUUAUAAUAAAGUGCAUAAUCAUAUUAACGCAUGGGAUGCAUAUAAUUUUGUUACCUUAUUGGCUUCGUGUGGUUUUGAAAUGGAAGCAUACUUACCAAUAGAAGGAGUUGCCCAACCUUACUUUAUAUGGAAAAGAAUUCCUAUAAUAGGGAAAUGGCUACCUGCGUACACCAAUAAAAAGAAUCGUGGAAAGAAGGGGAAUUGGUCAUAUACAAUGAGCUUUAGAUUCAAGAAAGUAAGAGAGGCAUGUAUCGAAAACUAUGAUUGAAUAAAAUAGUUAA ............((((((......(((((....((((((...............)))))))))))......((((((.((((((((.....))))))))..))))))..)))))).(((((.((.....))...((((............(((((........))))).((((((((...(((((((.....(((((((..((((((((((....((((((......))))))..(((......))).......))))))))))......(((((((.(((((((((....(((((.((((.....)))).)))))...))))))..))).((.(((...(((((..(((((.((((.....))))))))))))))....))).))...........)))))))....))))))).....))......(.((((.....)))).)..)))))..))))))))......)))).)))))...((((((...........)))))).. (-110.66) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 342 302 105 67 tfor:TF1137|5end_asparaginyl-tRNA_synthetase_(asparagine--tRNA_ligase)_1212443..1212673_POSITIVE 296 200 160 76 36 tfor:TF0888|5end_transfer_region-related_protein,_TraN_938392..938622_POSITIVE 295 220 176 55 18 tfor:TF3026|5end_conserved_hypothetical_protein_3249137..3249367_POSITIVE 291 126 85 150 107 tfor:TF2825|5end_transposase_3016390..3016620_POSITIVE 291 126 85 150 107 tfor:TF2591|5end_transposase_2757641..2757871_POSITIVE 291 126 85 150 107 tfor:TF2110|5end_transposase_2279217..2279447_POSITIVE 291 126 85 150 107 tfor:TF0942|5end_transposase_982998..983228_POSITIVE 291 126 85 150 107 tfor:TF0716|5end_transposase_766297..766527_POSITIVE 288 158 112 94 36 tfor:TF1346|5end_hypothetical_protein_1425880..1426110_POSITIVE 283 126 85 229 186 tfor:TF3001|5end_transposase_3216491..3216721_POSITIVE 283 126 85 150 107 tfor:TF3000|5end_hypothetical_protein_3216412..3216642_POSITIVE 282 206 164 125 71 tfor:TF2126|5end_S-adenosylhomocysteine_hydrolase_2302501..2302731_POSITIVE 282 200 164 231 191 tfor:TF1191|5end_possible_transcriptional_regulator_1273615..1273845_POSITIVE 281 134 95 201 157 tfor:TF0754|5end_GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-redu_ctase_(GDP-L-fucose_synthetase)_801631..801861_POSITIVE 275 205 163 150 113 tfor:TF2223|5end_CTn_excision__protein_2394247..2394477_POSITIVE 275 344 302 167 113 tfor:TF0881|5end_conserved_hypothetical_protein_934459..934689_POSITIVE 274 199 156 208 162 tfor:TF2729|5end_possible_outer_membrane_protein_2908216..2908446_POSITIVE 272 333 303 126 97 tfor:TF1721|5end_2,3-bisphosphoglycerate-independent_phosphoglycerate_mutase_1844374..1844604_POSITIVE 269 409 365 53 25 tfor:TF0288|5end_conserved_hypothetical_protein_317474..317704_POSITIVE 268 127 81 192 146 tfor:TF0307|5end_conserved_hypothetical_protein_332783..333013_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 132 96 131 92 tfor:TF3051|3end_conserved_hypothetical_protein_3278067..3278217_POSITIVE 288 158 112 67 9 tfor:TF1344|3end_conserved_hypothetical_protein_1425933..1426083_POSITIVE 276 129 84 72 27 tfor:TF2900|3end_conserved_hypothetical_protein_3090029..3090179_POSITIVE 275 230 183 140 96 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 275 205 163 52 15 tfor:TF2221|3end_CTn_excision_protein_2394229..2394379_POSITIVE 273 129 82 50 1 tfor:TF0888|3end_transfer_region-related_protein,_TraN_939506..939656_POSITIVE 272 333 303 48 19 tfor:TF1720|3end_conserved_hypothetical_protein_1844376..1844526_POSITIVE 270 125 81 106 52 tfor:TF1782|3end_conserved_hypothetical_protein_1923333..1923483_POSITIVE 268 127 81 78 32 tfor:TF0306|3end_transglutaminase-like_enzyme/cysteine_protease_332749..332899_POSITIVE 261 95 67 32 7 tfor:TF1259|3end_hypothetical_protein_1345204..1345354_POSITIVE 259 200 159 147 97 tfor:TF0254|3end_hypothetical_protein_285684..285834_POSITIVE 258 156 115 116 58 tfor:TF2613|3end_conserved_hypothetical_protein_2789798..2789948_POSITIVE 254 410 363 98 48 tfor:TF2704|3end_ribonuclease_HII_2876921..2877071_POSITIVE 254 198 154 68 29 tfor:TF0248|3end_hypothetical_protein_278895..279045_POSITIVE 252 67 24 85 45 tfor:TF2247|3end_transfer_region-related_protein,_TraA_2422625..2422775_POSITIVE 251 129 87 109 65 tfor:TF2785|3end_RNA_polymerase_sigma_factor,_ECF_subfamily_(sigma-70)_2969917..2970067_POSITIVE 250 128 81 77 19 tfor:TF2251|3end_conjugative_transposon_protein,_TraE_2424687..2424837_POSITIVE 249 195 153 72 27 tfor:TF2454|3end_D-alanyl-D-alanine_dipeptidase_2632025..2632175_POSITIVE 249 117 77 94 34 tfor:TF2418|3end_GTP-binding_protein_2598384..2598534_POSITIVE 248 125 82 98 60 tfor:TF2911|3end_hypothetical_protein_3106640..3106790_POSITIVE