Origin IGS: tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagtaaaaacgagttccgttttcagccttgcggttatgggagtattgaaattcggtcattgcgttccgatattgcttttccgataaacagaataggggatgtgtcaaaaacaaacga Mask Tandem Repeat Region ================================================ tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Find is-nt database================================================ Query_seq: TF1452:TF1454|TF1452:TF1454:conserved hypothetical protein; possible transglutaminase-like enzyme:sugar phosphate epimerase/isomerase:->->:1539718..1539835 118 tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1452:TF1454|TF1452:TF1454:conserved hypothetical protein; possible transglutaminase-like enzyme:sugar phosphate epimerase/isomerase:->->:1539718..1539835 118 tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1452:TF1454|TF1452:TF1454:conserved hypothetical protein; possible transglutaminase-like enzyme:sugar phosphate epimerase/isomerase:->->:1539718..1539835 118 tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 5 End: 118 .... M F L T H P L F C L S E K Q Y R N A M T E F Q Y S H N R K A E N G T R F Y L tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta 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================================================ tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1452:TF1454|TF1452:TF1454:conserved hypothetical protein; possible transglutaminase-like enzyme:sugar phosphate epimerase/isomerase:->->:1539718..1539835 118 tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Intra-Species Hit: Count: 1 Min: 1 Max: 118 Len: 118 Subject: tfor_TF1452_TF1454|conserved hypothetical protein; possible transglutaminase-like enzyme:sugar phosphate epimerase/isomerase|POSITIVE:POSITIVE|[1539718, 1539835]|118 HSP 1 e-value: 5.0E-61 bit: 234.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta tcgtttgtttttgacacatcccctattctgtttatcggaaaagcaatatcggaacgcaatgaccgaatttcaatactcccataaccgcaaggctgaaaacggaactcgtttttactta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGUUUGUUUUUGACACAUCCCCUAUUCUGUUUAUCGGAAAAGCAAUAUCGGAACGCAAUGACCGAAUUUCAAUACUCCCAUAACCGCAAGGCUGAAAACGGAACUCGUUUUUACUUA ......((..((((........((.(((((.....))))).)).....((((..........))))...)))).))........((....)).((((((((.....)))))))).... (-17.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUAAAAACGAGUUCCGUUUUCAGCCUUGCGGUUAUGGGAGUAUUGAAAUUCGGUCAUUGCGUUCCGAUAUUGCUUUUCCGAUAAACAGAAUAGGGGAUGUGUCAAAAACAAACGA .........(((.(((((.(.(((.......(((....((.(((((((.(((.((.....)).))).))))))).))...))).......))).).))))).)))............. (-20.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 57 19 59 18 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 312 90 43 146 96 tfor:TF2377|5end_orotidine_5'_phosphate_decarboxylase_2541799..2542029_POSITIVE 298 67 22 158 111 tfor:TF1744|5end_phenylacetate-CoA_ligase_1877822..1878052_POSITIVE 294 89 41 66 19 tfor:TF0890|5end_transfer_region-related_protein,_TraQ_940014..940244_POSITIVE 290 103 61 79 37 tfor:TF2176|5end_hypothetical_protein_2348911..2349141_POSITIVE 289 65 26 222 181 tfor:TF3127|5end_acetyltransferase,_possible_GNAT_family_3361627..3361857_POSITIVE 286 109 63 223 172 tfor:TF0525|5end_conserved_hypothetical_protein_549265..549495_POSITIVE 282 100 52 184 132 tfor:TF3018|5end_polyphosphate_kinase_3240122..3240352_POSITIVE 274 109 64 177 130 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 273 108 75 62 28 tfor:TF0663|5end_conserved_hypothetical_protein_708450..708680_POSITIVE 272 66 27 207 167 tfor:TF1629|5end_hypothetical_protein_1741563..1741793_POSITIVE 272 95 51 214 172 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 272 95 51 214 172 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 270 93 51 186 126 tfor:TF0344|5end_hypothetical_protein_366722..366952_POSITIVE 269 77 31 203 149 tfor:TF3081|5end_ISPg7,_transposase_3314517..3314747_POSITIVE 269 94 52 67 32 tfor:TF2133|5end_aspartate-semialdehyde_dehydrogenase_2310275..2310505_POSITIVE 269 94 52 116 86 tfor:TF0600|5end_oxidoreductase/dehydrogenase_630083..630313_POSITIVE 269 79 33 59 13 tfor:TF0289|5end_conserved_hypothetical_protein_318015..318245_POSITIVE 262 57 12 199 150 tfor:TF2379|5end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2543849..2544079_POSITIVE 262 79 36 187 127 tfor:TF0034|5end_outer_membrane_protein_32551..32781_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 341 46 1 105 59 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 312 90 43 112 62 tfor:TF2375|3end_conserved_hypothetical_protein_2541845..2541995_POSITIVE 294 89 41 50 3 tfor:TF0889|3end_conjugative_transposon_protein,_TraO_940078..940228_POSITIVE 288 104 75 31 2 tfor:TF2349|3end_conserved_hypothetical_protein_2514921..2515071_POSITIVE 282 56 18 147 112 tfor:TF1743|3end_conserved_hypothetical_protein_1877909..1878059_POSITIVE 273 108 75 86 52 tfor:TF0662|3end_hypothetical_protein_708554..708704_POSITIVE 272 66 27 140 100 tfor:TF1628|3end_conserved_hypothetical_protein_1741576..1741726_POSITIVE 269 94 52 83 53 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 269 79 33 63 17 tfor:TF0288|3end_conserved_hypothetical_protein_318099..318249_POSITIVE 266 41 1 100 55 tfor:TF0795|3end_hypothetical_protein_853199..853349_POSITIVE 265 80 35 145 102 tfor:TF3158|3end_inner_membrane_protein_3395206..3395356_POSITIVE 262 57 12 141 92 tfor:TF2378|3end_peptide_chain_release_factor_1_2543871..2544021_POSITIVE 260 88 41 85 31 tfor:TF2366|3end_conserved_hypothetical_protein_2531892..2532042_POSITIVE 260 108 63 103 61 tfor:TF1730|3end_diaminopimelate_decarboxylase_1855907..1856057_POSITIVE 257 49 2 84 37 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 253 104 61 108 71 tfor:TF3159|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_3395611..3395761_POSITIVE 253 66 21 51 10 tfor:TF2642|3end_acetylornithine_deacetylase_2811827..2811977_POSITIVE 250 88 42 106 57 tfor:TF1914|3end_conserved_hypothetical_protein_2067656..2067806_POSITIVE 250 88 43 151 104 tfor:TF0432|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_453366..453516_POSITIVE 248 108 73 47 20 tfor:TF0762|3end_chromate_transport_protein_809755..809905_POSITIVE