Origin IGS: tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta .........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 taatcgattgcttgtttcctcatcctaaaaaagaccgtagccgattctgctcgaccacggtcttttatttgaatgacaactgcttttcgacatacaatgcaccaccgtttaaattgttatcaacagcgattagctaaaaacaggctgtcccggaaataatcatttagccaacatgcctcattgataagaaaaaagccgtattttgggggacctcgttaatcgctacaacatgcccagccaagcttttca Mask Tandem Repeat Region ================================================ tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Find is-nt database================================================ Query_seq: TF1969:TF1970|TF1969:TF1970:transcriptional regulator, AsnC family:oxaloacetate decarboxylase, beta subunit:->->:2116695..2116943 249 tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1969:TF1970|TF1969:TF1970:transcriptional regulator, AsnC family:oxaloacetate decarboxylase, beta subunit:->->:2116695..2116943 249 tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1969:TF1970|TF1969:TF1970:transcriptional regulator, AsnC family:oxaloacetate decarboxylase, beta subunit:->->:2116695..2116943 249 tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 152 End: 247 ....................................................................................................................................................... M V C R K A V V I Q I K D R G R A E S A T V F F R M R K Q A I D .. Protein_Len: 44 Strand: - Start: 116 End: 247 ................................................................................................................... S I A T S L L K F P P A N Y T S F C N D N L Y F V T T S C F R S R D K K P H P F L C D M .. tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta 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================================================ tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -12.2 Tail_Score: -5.0538 Start: 188 End: 217 Full_Region: GTCATTCAAATAAAA GACCGTGGTCGA GCAGAA TCGGCTACGGTC TTTTTTAGGATGAGG ...........................................................................................................................................................................................GACCGTGGTCGAGCAGAATCGGCTACGGTC................................ TransTerm Strand: - Conf: 91 HP_score: -7.8 Tail_Score: -4.90778 Start: 188 End: 217 Full_Region: cctcatcctaaaaaa gaccgtagccga ttctgc tcgaccacggtc ttttatttgaatgac ...........................................................................................................................................................................................gaccgtagccgattctgctcgaccacggtc................................ Find igs database================================================ Query_seq: TF1969:TF1970|TF1969:TF1970:transcriptional regulator, AsnC family:oxaloacetate decarboxylase, beta subunit:->->:2116695..2116943 249 tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Intra-Species Hit: Count: 1 Min: 1 Max: 249 Len: 249 Subject: tfor_TF1969_TF1970|transcriptional regulator, AsnC family:oxaloacetate decarboxylase, beta subunit|POSITIVE:POSITIVE|[2116695,2116943]|249 HSP 1 e-value: 1.0E-139 bit: 494.0 Len: 249 Query Start:1 Query End:249 Subject Strand: POSITIVE Subject Start: 1 Subject End: 249 tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta tgaaaagcttggctgggcatgttgtagcgattaacgaggtcccccaaaatacggcttttttcttatcaatgaggcatgttggctaaatgattatttccgggacagcctgtttttagctaatcgctgttgataacaatttaaacggtggtgcattgtatgtcgaaaagcagttgtcattcaaataaaagaccgtggtcgagcagaatcggctacggtcttttttaggatgaggaaacaagcaatcgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAAGCUUGGCUGGGCAUGUUGUAGCGAUUAACGAGGUCCCCCAAAAUACGGCUUUUUUCUUAUCAAUGAGGCAUGUUGGCUAAAUGAUUAUUUCCGGGACAGCCUGUUUUUAGCUAAUCGCUGUUGAUAACAAUUUAAACGGUGGUGCAUUGUAUGUCGAAAAGCAGUUGUCAUUCAAAUAAAAGACCGUGGUCGAGCAGAAUCGGCUACGGUCUUUUUUAGGAUGAGGAAACAAGCAAUCGAUUA ......(((((...(((.((.((((........)))).)).))).........(((((((...((((((((..((..((((((((((..........((((....))))..))))))))))(((((((............))))))))).))))).)))..)))))))..((.((((((....((((((((((((((((......))))))))))))))))...)))))).))..)))))......... (-76.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGAUUGCUUGUUUCCUCAUCCUAAAAAAGACCGUAGCCGAUUCUGCUCGACCACGGUCUUUUAUUUGAAUGACAACUGCUUUUCGACAUACAAUGCACCACCGUUUAAAUUGUUAUCAACAGCGAUUAGCUAAAAACAGGCUGUCCCGGAAAUAAUCAUUUAGCCAACAUGCCUCAUUGAUAAGAAAAAAGCCGUAUUUUGGGGGACCUCGUUAAUCGCUACAACAUGCCCAGCCAAGCUUUUCA .....((..(((((.....((((.(...((((((((((.(.(((......))).).))))))))))....).))))...(((......((...(((((..............)))))..))...((((((((((........(((((.....((.....))...)))))......(((((..((((.(........).)))).)))))......))))))))))..........))).)))))...)). (-55.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 379 79 40 45 6 tfor:TF2731|5end_Fe2+/Zn2+_uptake_regulation_protein_2911196..2911426_POSITIVE 368 217 171 222 165 tfor:TF3112|5end_Na+/H+_anitporter_3346775..3347005_POSITIVE 341 45 7 189 138 tfor:TF0745|5end_conserved_hypothetical_protein_790653..790883_POSITIVE 336 56 12 44 7 tfor:TF0819|5end_phosphoglycerate_mutase_878447..878677_POSITIVE 330 217 171 207 155 tfor:TF2265|5end_transfer_region-related_protein,_TraP;_DNA_primase_involved_in_conjugation_2433474..2433704_POSITIVE 329 46 7 54 9 tfor:TF0248|5end_hypothetical_protein_278249..278479_POSITIVE 327 200 152 55 2 tfor:TF0137|5end_conserved_hypothetical_protein_146585..146815_POSITIVE 325 53 11 183 140 tfor:TF0374|5end_glycerophosphoryl_diester_phosphodiesterase_392527..392757_POSITIVE 323 240 192 47 2 tfor:TF0729|5end_DNA_primase_780107..780337_POSITIVE 322 220 171 203 141 tfor:TF2513|5end_conserved_hypothetical_protein_2691146..2691376_POSITIVE 321 230 188 72 29 tfor:TF2492|5end_NifU-related_protein_2666683..2666913_POSITIVE 321 54 11 191 144 tfor:TF1945|5end_glycerate_dehydrogenase_2093229..2093459_POSITIVE 320 229 189 38 1 tfor:TF1178|5end_sigma-54_dependent_DNA-binding_response_regulator_1264693..1264923_POSITIVE 320 240 192 127 67 tfor:TF1049|5end_cobyrinic_acid_a,c-diamide_synthase_1110140..1110370_POSITIVE 316 55 11 69 15 tfor:TF3145|5end_conserved_hypothetical_protein;_possible_GTP_cyclohydrolase_I_family_3381254..3381484_POSITIVE 316 240 191 229 175 tfor:TF0856|5end_conserved_hypothetical_protein_908119..908349_POSITIVE 315 100 52 58 13 tfor:TF2518|5end_ATP-dependent_DNA_helicase_2695541..2695771_POSITIVE 315 166 123 184 139 tfor:TF1086|5end_hypothetical_protein_1156562..1156792_POSITIVE 313 240 194 140 96 tfor:TF0435|5end_DNA_mismatch_repair_protein_457182..457412_POSITIVE 312 228 181 77 26 tfor:TF3162|5end_hypothetical_protein_3397624..3397854_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 363 229 190 145 102 tfor:TF2937|3end_translation_elongation_factor_Tu_3140502..3140652_POSITIVE 329 46 7 73 28 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 321 230 188 64 21 tfor:TF2490|3end_4-hydroxyphenylacetate-3-hydroxylase/4-hydroxybut_yryl_dehydratase_2666755..2666905_POSITIVE 320 229 189 38 1 tfor:TF1177|3end_conserved_hypothetical_protein;_possible_ribosomal_protein_S1_1264773..1264923_POSITIVE 320 240 192 124 64 tfor:TF1048|3end_permease_1110217..1110367_POSITIVE 312 228 181 64 13 tfor:TF3161|3end_transposase_3397691..3397841_POSITIVE 311 100 54 128 79 tfor:TF1158|3end_outer_membrane_lipoprotein,_NlpE_involved_in_copper_resistance_1240129..1240279_POSITIVE 311 239 191 77 26 tfor:TF0582|3end_hemolysin-related_protein,_with_CBS_domains;_possible_gliding-motility_related_protein_613263..613413_POSITIVE 311 170 121 135 97 tfor:TF0471|3end_conserved_hypothetical_protein_487886..488036_POSITIVE 308 217 187 145 111 tfor:TF3143|3end_conserved_hypothetical_protein;_possible_membrane_protein_3379227..3379377_POSITIVE 307 55 11 55 15 tfor:TF2049|3end_glycosyltransferase_2213992..2214142_POSITIVE 306 230 187 145 106 tfor:TF0744|3end_DNA_polymerase_III_subunit,_gamma/tau_792308..792458_POSITIVE 306 240 191 107 50 tfor:TF0606|3end_signal_peptidase_II_637504..637654_POSITIVE 302 155 115 139 104 tfor:TF1525|3end_conserved_hypothetical_protein_1632532..1632682_POSITIVE 301 240 192 116 51 tfor:TF0531|3end_hypothetical_protein_557469..557619_POSITIVE 298 126 81 144 78 tfor:TF2562|3end_50S_ribosomal_protein_L29_2739407..2739557_POSITIVE 298 57 11 123 74 tfor:TF2392|3end_alpha-galactosidase_2565506..2565656_POSITIVE 297 164 123 151 108 tfor:TF1085|3end_Fe-S_oxidoreductase_1156611..1156761_POSITIVE 295 236 191 62 5 tfor:TF3154|3end_conserved_hypothetical_protein_3390489..3390639_POSITIVE 295 239 192 105 58 tfor:TF0002|3end_hypothetical_protein_647..797_POSITIVE