Origin IGS: tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgtctctcctttttatttgctgttagcgtgttctcactataacaaaatccgtcgcttcgggagtaaaggattttgctatctgtgacaaatgtcactttttgaacatttgttttgtactatactggtcaatatgggttttgttacttaaatcacaaaataaggagaaagca Mask Tandem Repeat Region ================================================ tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Find is-nt database================================================ Query_seq: AA00497:AA00499|AA00497:AA00499:hexose phosphate transport system regulatory protein; regulator of uhpT expression:pyridoxamine-5'-phosphate oxidase:->->:346540..346709 170 tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00497:AA00499|AA00497:AA00499:hexose phosphate transport system regulatory protein; regulator of uhpT expression:pyridoxamine-5'-phosphate oxidase:->->:346540..346709 170 tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00497:AA00499|AA00497:AA00499:hexose phosphate transport system regulatory protein; regulator of uhpT expression:pyridoxamine-5'-phosphate oxidase:->->:346540..346709 170 tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 76 End: 168 ........................................................................... M T F V T D S K I L Y S R S D G F C Y S E N T L T A N K K E R .. Protein_Len: 44 Strand: - Start: 1 End: 132 A K E K N Q S K L L L V W I S W Y L V F C I N L F H C K D C I A F D K V G S A V S K T M ...................................... tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca 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================================================ tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 62 HP_score: -3.3 Tail_Score: -4.52047 Start: 62 End: 85 Full_Region: ttttgctatctgtga caaatgtca ctttt tgaacatttg ttttgtactatactg .............................................................caaatgtcactttttgaacatttg..................................................................................... TransTerm Strand: - Conf: 78 HP_score: -6.7 Tail_Score: -4.6526 Start: 76 End: 89 Full_Region: aggattttgctatct gtgac aaat gtcac tttttgaacatttgt ...........................................................................gtgacaaatgtcac................................................................................. TransTerm Strand: + Conf: 53 HP_score: -4.2 Tail_Score: -3.40403 Start: 96 End: 128 Full_Region: ATTTGTCACAGATAG CAAAATCCTTTACT CCCGA AGCGACGGATTTTG TTATAGTGAGAACAC ...............................................................................................CAAAATCCTTTACTCCCGAAGCGACGGATTTTG.......................................... Find igs database================================================ Query_seq: AA00497:AA00499|AA00497:AA00499:hexose phosphate transport system regulatory protein; regulator of uhpT expression:pyridoxamine-5'-phosphate oxidase:->->:346540..346709 170 tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Intra-Species Hit: Count: 1 Min: 1 Max: 170 Len: 170 Subject: aact_AA00497_AA00499|hexose phosphate transport system regulatory protein; regulator of uhpT expression:pyridoxamine-5'-phosphate oxidase|POSITIVE:POSITIVE|[346540,346709]|170 HSP 1 e-value: 7.0E-92 bit: 337.0 Len: 170 Query Start:1 Query End:170 Subject Strand: POSITIVE Subject Start: 1 Subject End: 170 tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca tgctttctccttattttgtgatttaagtaacaaaacccatattgaccagtatagtacaaaacaaatgttcaaaaagtgacatttgtcacagatagcaaaatcctttactcccgaagcgacggattttgttatagtgagaacacgctaacagcaaataaaaaggagagaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUUUCUCCUUAUUUUGUGAUUUAAGUAACAAAACCCAUAUUGACCAGUAUAGUACAAAACAAAUGUUCAAAAAGUGACAUUUGUCACAGAUAGCAAAAUCCUUUACUCCCGAAGCGACGGAUUUUGUUAUAGUGAGAACACGCUAACAGCAAAUAAAAAGGAGAGACA ...(((((((((.(((((((...((.....(((........))).....))...)))))))....(((((.....(((((....)))))..((((((((((((.(..((.....))..).)))))))))))).....))))).((.....)).......))))))))).. (-41.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUCUCUCCUUUUUAUUUGCUGUUAGCGUGUUCUCACUAUAACAAAAUCCGUCGCUUCGGGAGUAAAGGAUUUUGCUAUCUGUGACAAAUGUCACUUUUUGAACAUUUGUUUUGUACUAUACUGGUCAAUAUGGGUUUUGUUACUUAAAUCACAAAAUAAGGAGAAAGCA ....(((((((....((((.((.....(((....)))..(((((((((((((....((((.((((..((((......))))..(((((((((((.....)).)))))))))...))))...)))).....))))))))))))).......))))))..)))))))..... (-41.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 124 90 184 145 aact:AA01779|5end_molybdenum_ABC_transporter,_ATP-binding_protein_1200036..1200266_POSITIVE 287 144 111 86 58 aact:AA01393|5end_ABC_transporter,_ATP-binding_protein_940369..940599_POSITIVE 270 130 81 189 139 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 268 122 97 33 2 aact:AA01637|5end_ribonucleoside_diphosphate_reductase_1106657..1106887_POSITIVE 266 129 89 72 41 aact:AA02089|5end_glycogen_operon_protein_1422050..1422280_POSITIVE 266 145 102 64 16 aact:AA01615|5end_lipoprotein_releasing_system_transmembrane_1091186..1091416_POSITIVE 262 125 86 211 172 aact:AA01738|5end_enoyl-(acyl-carrier-protein)_reductase_1174699..1174929_POSITIVE 262 137 101 146 105 aact:AA00976|5end_conserved_hypothetical_protein_681206..681436_POSITIVE 256 145 111 93 46 aact:AA01224|5end_CTP_synthase_836221..836451_POSITIVE 255 140 95 90 47 aact:AA02964|5end_opacity_associated_protein_A_2072738..2072968_POSITIVE 255 125 84 192 144 aact:AA01825|5end_iron(III)_ABC_transporter,_permease_protein_1228475..1228705_POSITIVE 254 152 112 55 10 aact:AA00348|5end_50S_ribosomal_protein_L1_232570..232800_POSITIVE 253 130 85 121 72 aact:AA02253|5end_hypothetical_protein_1534605..1534835_POSITIVE 249 155 116 212 158 aact:AA01025|5end_hypothetical_protein_717522..717752_POSITIVE 247 140 91 107 64 aact:AA00682|5end_S-adenosylmethionine-dependent_methyltransferase_466322..466552_POSITIVE 246 155 112 113 76 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 242 145 112 231 198 aact:AA01416|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_952780..953010_POSITIVE 242 119 79 75 33 aact:AA00340|5end_NADP(H)_oxidoreductase_(NAD(P)H_dehydrogenase_(quinone))_228797..229027_POSITIVE 241 150 101 200 153 aact:AA01586|5end_DNA_mismatch_repair_protein_1066966..1067196_POSITIVE 239 125 84 151 116 aact:AA02929|5end_hypothetical_protein_2049189..2049419_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 144 111 39 11 aact:AA01391|3end_glycerol-3-phosphate_acyltransferase_940402..940552_POSITIVE 267 154 112 116 66 aact:AA00619|3end_hypothetical_protein_424324..424474_POSITIVE 266 129 89 35 4 aact:AA02088|3end_glycogen_operon_protein_1422093..1422243_POSITIVE 262 125 86 135 96 aact:AA01737|3end_exoribonuclease_II_1174703..1174853_POSITIVE 256 124 100 33 7 aact:AA01778|3end_aminopeptidase_A/I;_cytosol_aminopeptidase;_leucyl_aminopeptidase_1199965..1200115_POSITIVE 254 152 112 47 2 aact:AA00347|3end_50S_ribosomal_protein_L11_232642..232792_POSITIVE 253 130 85 132 83 aact:AA02252|3end_conserved_hypothetical_protein_1534696..1534846_POSITIVE 246 158 111 111 72 aact:AA01508|3end_anaerobic_C4-dicarboxylate_transporter_1014597..1014747_POSITIVE 246 155 112 110 73 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 245 140 92 149 90 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 242 119 79 60 18 aact:AA00339|3end_hypothetical_protein_228862..229012_POSITIVE 239 125 84 126 91 aact:AA02928|3end_conserved_hypothetical_protein_2049244..2049394_POSITIVE 239 123 108 46 29 aact:AA02296|3end_conserved_hypothetical_protein_(possible_cell_wall-associated_hydrolase)_1566581..1566731_POSITIVE 239 123 108 46 29 aact:AA00620|3end_hydrolase_425693..425843_POSITIVE 239 123 108 23 6 aact:AA00411|3end_hydrolase_276288..276438_POSITIVE 238 136 91 59 11 aact:AA02324|3end_ABC_transporter_ATP_binding_protein_1587392..1587542_POSITIVE 238 120 78 99 61 aact:AA01995|3end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355394..1355544_POSITIVE 235 154 116 109 68 aact:AA02260|3end_pseudouridylate_synthase_I_1537962..1538112_POSITIVE 234 130 82 141 99 aact:AA02691|3end_hypothetical_protein_1876315..1876465_POSITIVE 234 130 82 61 19 aact:AA02689|3end_hydrogenase-4_component_F_1876235..1876385_POSITIVE