Origin IGS: tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat .........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 attctaccttcataaccgctttaaaggtacatggcgcgcttccaagtaattgtgctgaatcgggggagagcattatagaaccgtgtactgataaaaccggtatcccttttcgttcgattaaacagcgtgtggccatattgccgattgagtttgtaataccacgttccgtgattttttctgttatgttcatttatttgatctctctgtattctcccgtatcagtcatacagggttatatattcctcagcctttttaagttcattataagttgtagtatggcttagataatccggcccggtaccgtttgtctaaggcta Mask Tandem Repeat Region ================================================ tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Find is-nt database================================================ Query_seq: AA02352:AA02353|AA02352:AA02353:glycine betaine/carnitine/choline ABC transporter:spermidine / putrescine transport ATP-binding:->->:1611175..1611491 317 tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02352:AA02353|AA02352:AA02353:glycine betaine/carnitine/choline ABC transporter:spermidine / putrescine transport ATP-binding:->->:1611175..1611491 317 tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02352:AA02353|AA02352:AA02353:glycine betaine/carnitine/choline ABC transporter:spermidine / putrescine transport ATP-binding:->->:1611175..1611491 317 tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 109 End: 294 ............................................................................................................ M Q R D Q I N E H N R K N H G T W Y Y K L N R Q Y G H T L F N R T K R D T G F I S T R F Y N A L P R F S T I T W K R A M ....................... Protein_Len: 60 Strand: + Start: 128 End: 316 ............................................................................................................................... M N I T E K I T E R G I T N S I G N M A T R C L I E R K G I P V L S V H G S I M L S P D S A Q L L G S A P C T F K A V M . Protein_Len: 60 Strand: - Start: 37 End: 306 .................................... I F M V S F I V S R P I V F E I P L I A V R Q K I S R F P I G T K D T C P E I I S E G S E A C N S P L A G H V K L A T M ........... tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat 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================================================ tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 82 HP_score: -3.3 Tail_Score: -5.53436 Start: 147 End: 159 Full_Region: attgagtttgtaata ccacg ttc cgtga ttttttctgttatgt ..................................................................................................................................................ccacgttccgtga.............................................................................................................................................................. Find igs database================================================ Query_seq: AA02352:AA02353|AA02352:AA02353:glycine betaine/carnitine/choline ABC transporter:spermidine / putrescine transport ATP-binding:->->:1611175..1611491 317 tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Intra-Species Hit: Count: 1 Min: 1 Max: 317 Len: 317 Subject: aact_AA02352_AA02353|glycine betaine/carnitine/choline ABC transporter:spermidine / putrescine transport ATP-binding|POSITIVE:POSITIVE|[1611175,1611491]|317 HSP 1 e-value: 1.0E-179 bit: 628.0 Len: 317 Query Start:1 Query End:317 Subject Strand: POSITIVE Subject Start: 1 Subject End: 317 tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat tagccttagacaaacggtaccgggccggattatctaagccatactacaacttataatgaacttaaaaaggctgaggaatatataaccctgtatgactgatacgggagaatacagagagatcaaataaatgaacataacagaaaaaatcacggaacgtggtattacaaactcaatcggcaatatggccacacgctgtttaatcgaacgaaaagggataccggttttatcagtacacggttctataatgctctcccccgattcagcacaattacttggaagcgcgccatgtacctttaaagcggttatgaaggtagaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCUUAGACAAACGGUACCGGGCCGGAUUAUCUAAGCCAUACUACAACUUAUAAUGAACUUAAAAAGGCUGAGGAAUAUAUAACCCUGUAUGACUGAUACGGGAGAAUACAGAGAGAUCAAAUAAAUGAACAUAACAGAAAAAAUCACGGAACGUGGUAUUACAAACUCAAUCGGCAAUAUGGCCACACGCUGUUUAAUCGAACGAAAAGGGAUACCGGUUUUAUCAGUACACGGUUCUAUAAUGCUCUCCCCCGAUUCAGCACAAUUACUUGGAAGCGCGCCAUGUACCUUUAAAGCGGUUAUGAAGGUAGAAU ..(.((((((....((((.....)))).....)))))).)...((((...(((((((....(((((...((((((...........(((((((.....)))))))........(((((..........(((....(((((.....((((((...))))))...............(((......))).....)))))...))).........(((.((((((.........)).)))))))......)))))......)))))).....(((.(((.......))).)))..)))))....)))))))..))))... (-66.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUACCUUCAUAACCGCUUUAAAGGUACAUGGCGCGCUUCCAAGUAAUUGUGCUGAAUCGGGGGAGAGCAUUAUAGAACCGUGUACUGAUAAAACCGGUAUCCCUUUUCGUUCGAUUAAACAGCGUGUGGCCAUAUUGCCGAUUGAGUUUGUAAUACCACGUUCCGUGAUUUUUUCUGUUAUGUUCAUUUAUUUGAUCUCUCUGUAUUCUCCCGUAUCAGUCAUACAGGGUUAUAUAUUCCUCAGCCUUUUUAAGUUCAUUAUAAGUUGUAGUAUGGCUUAGAUAAUCCGGCCCGGUACCGUUUGUCUAAGGCUA ...(((((((.((((..((((.((((((..(((((..((...(((....))).)).((..(((((((((((((.((((((..(..(((((.......)))))..)..........(((((...((((((.(((......))).((((......))))..))))))...)))))..)))))).))))))........((....)).....)))))))..)).)))))..((((........))))..))))))..))))...)))))))..))))...(.(((((((((..(((.......))).))))))))).).. (-72.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 356 220 172 72 14 aact:AA01477|5end_type_I_restriction_enzyme_R_protein_992249..992479_POSITIVE 341 290 242 193 156 aact:AA01815|5end_probable_sodium-dependent_transmembrane_transport_protein_1222541..1222771_POSITIVE 328 108 61 112 77 aact:AA01195|5end_acyl_carrier_protein_819849..820079_POSITIVE 323 220 173 63 14 aact:AA00921|5end_conserved_hypothetical_protein_633332..633562_POSITIVE 302 220 172 65 7 aact:AA02463|5end_N-acetylglucosamine-6-phosphate_deacetylase_1702804..1703034_POSITIVE 300 220 173 71 26 aact:AA02952|5end_lipoprotein_signal_peptidase_2065116..2065346_POSITIVE 298 220 171 187 127 aact:AA02933|5end_conserved_hypothetical_protein_(HesA/MoeB/ThiF_family_protein)_2053467..2053697_POSITIVE 297 187 147 147 104 aact:AA00849|5end_MraZ_cell_division_protein_586038..586268_POSITIVE 294 309 270 40 3 aact:AA01834|5end_hypothetical_protein_1234640..1234870_POSITIVE 294 284 245 187 148 aact:AA01153|5end_sec-independent_protein_translocase_790166..790396_POSITIVE 291 300 261 42 11 aact:AA02561|5end_conserved_hypothetical_protein_1783553..1783783_POSITIVE 290 215 181 37 4 aact:AA01196|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase_820090..820320_POSITIVE 286 292 255 228 197 aact:AA02177|5end_conserved_hypothetical_protein_1488963..1489193_POSITIVE 286 230 182 192 145 aact:AA01811|5end_electron_transport_complex_protein_1220336..1220566_POSITIVE 284 290 247 212 155 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 282 220 177 74 29 aact:AA01066|5end_conserved_hypothetical_protein_738380..738610_POSITIVE 282 220 171 115 52 aact:AA00989|5end_hypothetical_protein_692319..692549_POSITIVE 280 48 3 128 72 aact:AA01928|5end_ATP-dependent_RNA_helicase_1301986..1302216_POSITIVE 278 57 15 92 43 aact:AA01816|5end_hypothetical_protein_1223956..1224186_POSITIVE 278 189 146 171 119 aact:AA00894|5end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_619879..620109_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 108 61 106 71 aact:AA01194|3end_acyl_carrier_protein_819923..820073_POSITIVE 311 215 175 56 12 aact:AA01195|3end_acyl_carrier_protein_820189..820339_POSITIVE 306 217 171 120 73 aact:AA00585|3end_glycerol-3-phosphate_regulon_repressor_399778..399928_POSITIVE 294 284 245 146 107 aact:AA01152|3end_sec-independent_protein_translocase_protein_790205..790355_POSITIVE 292 303 272 147 113 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 291 300 261 39 8 aact:AA02560|3end_integral_membrane_protein_1783630..1783780_POSITIVE 286 292 255 151 120 aact:AA02175|3end_anthranilate_synthase_component_II_1488966..1489116_POSITIVE 286 304 275 129 91 aact:AA01660|3end_hypothetical_protein_1125282..1125432_POSITIVE 275 203 162 47 15 aact:AA02454|3end_ATP-dependent_helicase_1694433..1694583_POSITIVE 275 288 255 121 82 aact:AA02369|3end_conserved_hypothetical_protein_1624648..1624798_POSITIVE 275 270 231 126 89 aact:AA02315|3end_conserved_hypothetical_protein_1581752..1581902_POSITIVE 269 224 181 43 3 aact:AA02703|3end_hypothetical_protein_1885582..1885732_POSITIVE 266 217 173 84 44 aact:AA01956|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_1323286..1323436_POSITIVE 266 195 151 127 72 aact:AA01273|3end_hypothetical_protein_864588..864738_POSITIVE 266 304 273 141 113 aact:AA00248|3end_hypothetical_protein_174049..174199_POSITIVE 266 304 273 38 10 aact:AA00247|3end_peptidyl-prolyl_cis-trans_isomerase_B_173946..174096_POSITIVE 265 308 272 78 35 aact:AA02869|3end_hypothetical_protein_2013972..2014122_POSITIVE 265 298 254 57 7 aact:AA01158|3end_ribosome_associated_heat_shock_protein_15_homolog_792892..793042_POSITIVE 264 307 272 65 28 aact:AA02626|3end_conserved_hypothetical_protein_1829202..1829352_POSITIVE 263 39 2 140 99 aact:AA00131|3end_transcriptional_regulator_(MerR_family)_94984..95134_POSITIVE