Origin IGS: agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc .........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 ggctacactcctgtagtaacaaataatgaatatgggatgtttgaattacagctcagtttgcattctaaagtaaaaaaatcgtttttaaatagagaatgaagctttatttcaaaaatgagaagtagatcacatagttggaatattatttcaaaaaatattttaaaatgaaattttattttagtagaatgtctccactgactagaatgactgccaaatgcagccgcaaaaaagaggagtttct Mask Tandem Repeat Region ================================================ agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Find is-nt database================================================ Query_seq: AA02472:AA02473|AA02472:AA02473:conserved hypothetical protein:conserved hypothetical protein:->->:1708470..1708710 241 agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02472:AA02473|AA02472:AA02473:conserved hypothetical protein:conserved hypothetical protein:->->:1708470..1708710 241 agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02472:AA02473|AA02472:AA02473:conserved hypothetical protein:conserved hypothetical protein:->->:1708470..1708710 241 agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Predict ORF larger than 30AA ================================================ Protein_Len: 58 Strand: + Start: 66 End: 236 ................................................................. M K F H F K I F F E I I F Q L C D L L L I F E I K L H S L F K N D F F T L E C K L S C N S N I P Y S L F V T T G V * ..... Protein_Len: 35 Strand: - Start: 3 End: 107 .. F E E K K R S C K A T M R T L P S M R S F Y F K M K F Y K K F Y Y E M ...................................................................................................................................... agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc 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: 82 Start: 55 End: 84 ......................................................TTTTAAAATGAAATTTTATTTTAGTAGAAT............................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 40 HP_score: -2.4 Tail_Score: -2.75844 Start: 155 End: 171 Full_Region: GCTTCATTCTCTATT TAAAAA CGATT TTTTTA CTTTAGAATGCAAAC ..........................................................................................................................................................TAAAAACGATTTTTTTA...................................................................... Find igs database================================================ Query_seq: AA02472:AA02473|AA02472:AA02473:conserved hypothetical protein:conserved hypothetical protein:->->:1708470..1708710 241 agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Intra-Species Hit: Count: 1 Min: 1 Max: 241 Len: 241 Subject: aact_AA02472_AA02473|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1708470,1708710]|241 HSP 1 e-value: 1.0E-121 bit: 436.0 Len: 241 Query Start:1 Query End:241 Subject Strand: POSITIVE Subject Start: 1 Subject End: 241 agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgannnnnnnactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc agaaactcctcttttttgcggctgcatttggcagtcattctagtcagtggagacattctactaaaataaaatttcattttaaaatattttttgaaataatattccaactatgtgatctacttctcatttttgaaataaagcttcattctctatttaaaaacgatttttttactttagaatgcaaactgagctgtaattcaaacatcccatattcattatttgttactacaggagtgtagcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAACUCCUCUUUUUUGCGGCUGCAUUUGGCAGUCAUUCUAGUCAGUGGAGACAUUCUACUAAAAUAAAAUUUCAUUUUAAAAUAUUUUUUGAAAUAAUAUUCCAACUAUGUGAUCUACUUCUCAUUUUUGAAAUAAAGCUUCAUUCUCUAUUUAAAAACGAUUUUUUUACUUUAGAAUGCAAACUGAGCUGUAAUUCAAACAUCCCAUAUUCAUUAUUUGUUACUACAGGAGUGUAGCC ....((((((.........((((((.....))))))....((((((((...(.(((((((.......((((..((.((((.(((((.....((((....((((.(((..(((.((......)).)))..))).))))....)))).....))))).)))).))..)))).....))))))))..))))).)))....................................))))))...... (-43.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCUACACUCCUGUAGUAACAAAUAAUGAAUAUGGGAUGUUUGAAUUACAGCUCAGUUUGCAUUCUAAAGUAAAAAAAUCGUUUUUAAAUAGAGAAUGAAGCUUUAUUUCAAAAAUGAGAAGUAGAUCACAUAGUUGGAAUAUUAUUUCAAAAAAUAUUUUAAAAUGAAAUUUUAUUUUAGUAGAAUGUCUCCACUGACUAGAAUGACUGCCAAAUGCAGCCGCAAAAAAGAGGAGUUUCU ......(((((((((((..((((((............))))))......((.(((((..((((((((((((((((...(((((((.(((((.....(((((...((((((((..(((.((......)).)))..))))))))...))))).....))))).)))))))..))))))))...))))))))....)))))))......)))))....(((....)))......)))))).... (-50.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 46 9 153 118 aact:AA01820|5end_high-affinity_zinc_uptake_system_ATP-binding_protein_1225103..1225333_POSITIVE 297 55 15 114 60 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 270 49 4 66 15 aact:AA00069|5end_conserved_hypothetical_protein_52465..52695_POSITIVE 268 55 19 47 1 aact:AA01098|5end_bis(5'-nucleosyl)-tetraphosphatase_757699..757929_POSITIVE 267 49 7 152 105 aact:AA00666|5end_hypothetical_protein_457470..457700_POSITIVE 265 49 18 117 82 aact:AA02351|5end_conserved_hypothetical_protein_1609233..1609463_POSITIVE 263 50 7 203 161 aact:AA02496|5end_hypothetical_protein_1731960..1732190_POSITIVE 263 50 8 160 119 aact:AA01418|5end_conserved_hypothetical_protein_953951..954181_POSITIVE 262 55 13 148 100 aact:AA02303|5end_ATP-dependent_DNA_helicase_1572696..1572926_POSITIVE 261 53 11 58 5 aact:AA02818|5end_ribosomal_RNA_small_subunit_methyltransferase_C_1980739..1980969_POSITIVE 260 53 17 60 23 aact:AA01156|5end_chaperonin_heat_shock_protein_33_homolog_791459..791689_POSITIVE 259 45 1 223 171 aact:AA03000|5end_uracil-DNA_glycosylase_(UDG)_2095076..2095306_POSITIVE 259 59 20 175 137 aact:AA02670|5end_hypothetical_protein_1858049..1858279_POSITIVE 259 53 16 54 6 aact:AA01973|5end_acetate_kinase_1334424..1334654_POSITIVE 259 207 172 210 167 aact:AA01477|5end_type_I_restriction_enzyme_R_protein_992249..992479_POSITIVE 256 54 17 216 168 aact:AA02566|5end_PTS_system,_IIC_component_1787008..1787238_POSITIVE 256 52 14 164 122 aact:AA00003|5end_DNA_replication_and_repair_protein_2337..2567_POSITIVE 255 60 16 199 148 aact:AA02472|5end_conserved_hypothetical_protein_1707631..1707861_POSITIVE 254 46 7 222 181 aact:AA02888|5end_ssrA-binding_protein,_small_protein_B_2024628..2024858_POSITIVE 254 48 1 164 112 aact:AA02539|5end_transcriptional_activator_1765920..1766150_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 46 9 48 13 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE 309 49 5 62 20 aact:AA01260|3end_hypothetical_protein_855758..855908_POSITIVE 297 55 15 83 29 aact:AA01546|3end_deoxyribose_operon_repressor_1036320..1036470_POSITIVE 284 34 1 138 107 aact:AA01923|3end_type_III_restriction-modification_system_methylation_subunit_1299936..1300086_POSITIVE 271 50 1 149 108 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 261 53 11 138 99 aact:AA02052|3end_probable_exodeoxyribonuclease_VII_small_subunit_1398909..1399059_POSITIVE 260 52 19 151 120 aact:AA01901|3end_hypothetical_protein_1282870..1283020_POSITIVE 259 207 172 142 99 aact:AA01476|3end_hypothetical_protein_992261..992411_POSITIVE 254 46 7 148 107 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 252 56 13 88 24 aact:AA01027|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_F_718988..719138_POSITIVE 251 60 17 108 67 aact:AA01994|3end_chorismate_mutase;_prephenate_dehydrogenase_1355251..1355401_POSITIVE 251 52 15 136 94 aact:AA01083|3end_preprotein_translocase_SecA_subunit_750970..751120_POSITIVE 251 60 11 142 89 aact:AA00031|3end_conserved_hypothetical_protein_25717..25867_POSITIVE 248 50 18 61 36 aact:AA01651|3end_hypothetical_protein_1120004..1120154_POSITIVE 248 50 8 145 106 aact:AA01024|3end_thiamine_biosynthesis_lipoprotein_precursor_717602..717752_POSITIVE 248 33 5 121 92 aact:AA00492|3end_conserved_hypothetical_protein_344737..344887_POSITIVE 245 51 15 135 98 aact:AA02350|3end_possible_lipoprotein_1609179..1609329_POSITIVE 244 50 5 47 4 aact:AA01883|3end_recycling_protein;_permease_1271187..1271337_POSITIVE 243 34 1 142 104 aact:AA02538|3end_conserved_hypothetical_protein_1765992..1766142_POSITIVE 241 36 8 145 116 aact:AA01417|3end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_954028..954178_POSITIVE