Origin IGS: taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc .........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 gatggcgcctttaccaaattgtttttcaatttgacctaacgccgcgtcgagtgctttttgcttttcttcttgagttgccatttttatacctcggggaaaatcattatcaaaaattcgcgcttataataactgtatctatatacagtatcaagtgaaattttgatctttttaaaaattctgtgatacggcttccaaaacgcaattattttgccgttattccgccttctatta Mask Tandem Repeat Region ================================================ taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Find is-nt database================================================ Query_seq: AA01556:AA01557|AA01556:AA01557:ABC transporter ATP-binding protein:recombinase A:->->:1044820..1045050 231 taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01556:AA01557|AA01556:AA01557:ABC transporter ATP-binding protein:recombinase A:->->:1044820..1045050 231 taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01556:AA01557|AA01556:AA01557:ABC transporter ATP-binding protein:recombinase A:->->:1044820..1045050 231 taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 30 End: 122 ............................. M R F G S R I T E F L K R S K F H L I L Y I D T V I I S A N F ............................................................................................................. Protein_Len: 40 Strand: + Start: 26 End: 145 ......................... M I A F W K P Y H R I F K K I K I S L D T V Y R Y S Y Y K R E F L I M I F P E V ...................................................................................... Protein_Len: 38 Strand: + Start: 118 End: 231 ..................................................................................................................... M F D N D F P R G I K M A T Q E E K Q K A L D A A L G Q I E K Q F G K G A I Protein_Len: 45 Strand: - Start: 80 End: 214 ............................................................................... K I S Y I S V T I I L A F K Q Y H N E G L Y L F P L E L L F A F L V R R P T L D F Q F V M ................. taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 87 Start: 80 End: 109 ...............................................................................CTTGATACTGTATATAGATACAGTTATTAT.......................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01556:AA01557|AA01556:AA01557:ABC transporter ATP-binding protein:recombinase A:->->:1044820..1045050 231 taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Intra-Species Hit: Count: 1 Min: 1 Max: 231 Len: 231 Subject: aact_AA01556_AA01557|ABC transporter ATP-binding protein:recombinase A|POSITIVE:POSITIVE|[1044820,1045050]|231 HSP 1 e-value: 1.0E-128 bit: 458.0 Len: 231 Query Start:1 Query End:231 Subject Strand: POSITIVE Subject Start: 1 Subject End: 231 taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc taatagaaggcggaataacggcaaaataattgcgttttggaagccgtatcacagaatttttaaaaagatcaaaatttcacttgatactgtatatagatacagttattataagcgcgaatttttgataatgattttccccgaggtataaaaatggcaactcaagaagaaaagcaaaaagcactcgacgcggcgttaggtcaaattgaaaaacaatttggtaaaggcgccatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAGAAGGCGGAAUAACGGCAAAAUAAUUGCGUUUUGGAAGCCGUAUCACAGAAUUUUUAAAAAGAUCAAAAUUUCACUUGAUACUGUAUAUAGAUACAGUUAUUAUAAGCGCGAAUUUUUGAUAAUGAUUUUCCCCGAGGUAUAAAAAUGGCAACUCAAGAAGAAAAGCAAAAAGCACUCGACGCGGCGUUAGGUCAAAUUGAAAAACAAUUUGGUAAAGGCGCCAUC ........((((...((((.((((.....)))).........(((((......(((..((.......(((((((.(((.(.(((((((((((....)))))).))))).....).))).)))))))...))..)))..((((..........(....)............((.....)).))))..)))))))))..((((((((.....))))))))......))))... (-47.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGGCGCCUUUACCAAAUUGUUUUUCAAUUUGACCUAACGCCGCGUCGAGUGCUUUUUGCUUUUCUUCUUGAGUUGCCAUUUUUAUACCUCGGGGAAAAUCAUUAUCAAAAAUUCGCGCUUAUAAUAACUGUAUCUAUAUACAGUAUCAAGUGAAAUUUUGAUCUUUUUAAAAAUUCUGUGAUACGGCUUCCAAAACGCAAUUAUUUUGCCGUUAUUCCGCCUUCUAUUA ((.((((.......(((((((.....))))))).......((((..(((((...((((((......((((((((...............))))))))........(((((((.(((((..........(((((((....))))))).....))))).))))))).....))))))..)).)))..))))......(((((((.....))).))))....)))).))..... (-48.82) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 46 5 200 163 aact:AA01081|5end_hypothetical_protein_747804..748034_POSITIVE 354 46 5 75 38 aact:AA01080|5end_hypothetical_protein_747679..747909_POSITIVE 346 228 182 53 12 aact:AA00506|5end_ATP-dependent_RNA_helicase_protein_351681..351911_POSITIVE 342 48 8 128 78 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 331 182 141 223 184 aact:AA01319|5end_transcriptional_regulatory_protein_892452..892682_POSITIVE 321 229 181 174 132 aact:AA00866|5end_conserved_hypothetical_protein_599925..600155_POSITIVE 318 47 4 66 30 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 308 198 155 96 49 aact:AA01733|5end_hypothetical_protein_1171777..1172007_POSITIVE 304 48 3 194 156 aact:AA02195|5end_oxaloacetate_decarboxylase_alpha_chain_1494501..1494731_POSITIVE 302 47 9 79 34 aact:AA00747|5end_UTP--hexose-1-phosphate_uridylyltransferase_/_UDPglucose-hexose-1-phosphate_uridylyltransferas_512384..512614_POSITIVE 302 227 181 65 19 aact:AA00695|5end_uridine_kinase_475033..475263_POSITIVE 300 229 181 231 166 aact:AA00605|5end_CDP-diglyceride_pyrophosphorylase_410930..411160_POSITIVE 290 229 183 157 98 aact:AA02742|5end_tRNA_nucleotidyltransferase_1921308..1921538_POSITIVE 288 218 177 95 49 aact:AA00482|5end_hydrolase_(haloacid_dehalogenase-like)_(HAD_superfamily)_335232..335462_POSITIVE 286 227 181 119 69 aact:AA02853|5end_conserved_hypothetical_protein_2001024..2001254_POSITIVE 285 49 9 80 41 aact:AA02177|5end_conserved_hypothetical_protein_1488963..1489193_POSITIVE 283 49 7 124 74 aact:AA02910|5end_ribonuclease_E_2036137..2036367_POSITIVE 282 228 182 107 59 aact:AA02205|5end_short_chain_dehydrogenase/reductase_1501170..1501400_POSITIVE 282 47 10 117 70 aact:AA01428|5end_acetolactate_synthase_958688..958918_POSITIVE 281 50 5 121 75 aact:AA00674|5end_nicotinate-nucleotide-dimethylbenzimidazole_phosphoribosyltransferase_461810..462040_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 46 5 57 20 aact:AA01079|3end_conserved_hypothetical_protein_747741..747891_POSITIVE 342 48 8 140 90 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 331 182 141 104 65 aact:AA01318|3end_hypothetical_protein_892413..892563_POSITIVE 302 227 181 52 6 aact:AA00694|3end_dCTP_deaminase_(deoxycytidine_triphosphate_deaminas)_475100..475250_POSITIVE 292 48 9 61 19 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 286 227 181 83 33 aact:AA02851|3end_hypothetical_protein_2001068..2001218_POSITIVE 282 228 182 119 71 aact:AA02204|3end_hypothetical_protein_1501262..1501412_POSITIVE 276 227 181 85 30 aact:AA02700|3end_succinyl-CoA_synthase,_alpha_subunit_1884205..1884355_POSITIVE 271 228 183 52 6 aact:AA02162|3end_lipoprotein_1479515..1479665_POSITIVE 269 47 10 61 29 aact:AA01646|3end_hypothetical_protein_1115262..1115412_POSITIVE 268 50 6 78 46 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE 268 197 153 68 26 aact:AA00055|3end_cytochrome_c-type_biogenesis_protein_44002..44152_POSITIVE 265 47 9 149 104 aact:AA01559|3end_RecA_regulatory_protein,_RecX_1046505..1046655_POSITIVE 264 47 5 69 27 aact:AA01641|3end_hypothetical_protein_1111036..1111186_POSITIVE 259 50 9 147 100 aact:AA02601|3end_ATP-dependent_helicase_1813309..1813459_POSITIVE 259 48 5 84 21 aact:AA01780|3end_ABC-related_molybdenum_transport_system_permease_protein_1201934..1202084_POSITIVE 259 196 155 151 106 aact:AA01732|3end_multidrug_resistance_protein_A_1171914..1172064_POSITIVE 258 219 183 147 104 aact:AA02740|3end_conserved_hypothetical_protein_1921394..1921544_POSITIVE 258 226 186 89 40 aact:AA00646|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_442405..442555_POSITIVE 258 47 5 52 5 aact:AA00253|3end_hypothetical_protein_177636..177786_POSITIVE