Origin IGS: tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta .........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 taatgacgataaaagaagagaaaaaagaaagggaatgtgattctctgttagtttcctacgtcagtattaactgtatcaggttcacgggtatcatctcagcacaaagcaccccgactaataacggggttcagtctatatattttgcggaggaagggcaaggagttttgtgttggtttgcgggaaaagaaaagcaccttatttttataaggtgcttagtttagttggtgtcagagttcagatgtaacaaagcgcctatttca Mask Tandem Repeat Region ================================================ tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Find is-nt database================================================ Query_seq: AA01858:AA01859|AA01858:AA01859:conserved hypothetical protein:hypothetical protein:->->:1251598..1251857 260 tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01858:AA01859|AA01858:AA01859:conserved hypothetical protein:hypothetical protein:->->:1251598..1251857 260 tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01858:AA01859|AA01858:AA01859:conserved hypothetical protein:hypothetical protein:->->:1251598..1251857 260 tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 67 End: 162 .................................................................. M L F F S R K P T Q N S L P F L R K I Y R L N P V I S R G A L C .................................................................................................. Protein_Len: 60 Strand: - Start: 43 End: 258 .......................................... G A F W C L V G Q G E E A F Y I S Q V G N N T P T S Q A S I I G T F R I C N I S V Y S V L L S D C E R E K K E E K I T M .. Protein_Len: 35 Strand: - Start: 20 End: 124 ................... M Q V R V G V L S L V K Y F Y P A K R K G C V L V F S R A R G G C F M ........................................................................................................................................ tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta 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================================================ tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -11.7 Tail_Score: -5.07652 Start: 49 End: 70 Full_Region: CACCAACTAAACTAA GCACCTTAT AAAA ATAAGGTGC TTTTCTTTTCCCGCA ................................................GCACCTTATAAAAATAAGGTGC.............................................................................................................................................................................................. TransTerm Strand: - Conf: 90 HP_score: -11.7 Tail_Score: -3.62539 Start: 49 End: 70 Full_Region: tgcgggaaaagaaaa gcaccttat tttt ataaggtgc ttagtttagttggtg ................................................gcaccttatttttataaggtgc.............................................................................................................................................................................................. TransTerm Strand: + Conf: 73 HP_score: -2.8 Tail_Score: -5.19003 Start: 216 End: 230 Full_Region: CGTAGGAAACTAACA GAGAAT CAC ATTCCC TTTCTTTTTTCTCTT .......................................................................................................................................................................................................................GAGAATCACATTCCC.............................. Find igs database================================================ Query_seq: AA01858:AA01859|AA01858:AA01859:conserved hypothetical protein:hypothetical protein:->->:1251598..1251857 260 tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Intra-Species Hit: Count: 1 Min: 1 Max: 260 Len: 260 Subject: aact_AA01858_AA01859|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1251598,1251857]|260 HSP 1 e-value: 1.0E-145 bit: 515.0 Len: 260 Query Start:1 Query End:260 Subject Strand: POSITIVE Subject Start: 1 Subject End: 260 tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta tgaaataggcgctttgttacatctgaactctgacaccaactaaactaagcaccttataaaaataaggtgcttttcttttcccgcaaaccaacacaaaactccttgcccttcctccgcaaaatatatagactgaaccccgttattagtcggggtgctttgtgctgagatgatacccgtgaacctgatacagttaatactgacgtaggaaactaacagagaatcacattccctttcttttttctcttcttttatcgtcatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAUAGGCGCUUUGUUACAUCUGAACUCUGACACCAACUAAACUAAGCACCUUAUAAAAAUAAGGUGCUUUUCUUUUCCCGCAAACCAACACAAAACUCCUUGCCCUUCCUCCGCAAAAUAUAUAGACUGAACCCCGUUAUUAGUCGGGGUGCUUUGUGCUGAGAUGAUACCCGUGAACCUGAUACAGUUAAUACUGACGUAGGAAACUAACAGAGAAUCACAUUCCCUUUCUUUUUUCUCUUCUUUUAUCGUCAUUA ........(((...(((((...........)))))...........(((((((((((....))))))))))).........)))....((.((((((.....((((.........))))..............((((((........))))))..)))))).)).(((((((...((...((((...((((....))))...))))..))....((((((..................)))))).....))))))).... (-55.97) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGACGAUAAAAGAAGAGAAAAAAGAAAGGGAAUGUGAUUCUCUGUUAGUUUCCUACGUCAGUAUUAACUGUAUCAGGUUCACGGGUAUCAUCUCAGCACAAAGCACCCCGACUAAUAACGGGGUUCAGUCUAUAUAUUUUGCGGAGGAAGGGCAAGGAGUUUUGUGUUGGUUUGCGGGAAAAGAAAAGCACCUUAUUUUUAUAAGGUGCUUAGUUUAGUUGGUGUCAGAGUUCAGAUGUAACAAAGCGCCUAUUUCA ..........................(((((((..(((((...((((.(((((...(((....)))..)))))...)))).))))).((..((((((((((((((((.(((((........))))).............((((((.........)))))).)))))))))))....((.((..(((..(((((((((((....)))))))))))..)))..)).))..........)))))..))......))).)))). (-66.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 177 134 198 160 aact:AA02955|5end_trigger_factor_2067022..2067252_POSITIVE 354 177 133 185 127 aact:AA01191|5end_AMP-binding_enzyme_816000..816230_POSITIVE 339 178 137 155 111 aact:AA02827|5end_conserved_hypothetical_protein_1987021..1987251_POSITIVE 339 189 142 172 124 aact:AA00040|5end_thiol:disulfide_interchange_protein_31358..31588_POSITIVE 338 186 147 51 9 aact:AA00618|5end_molybdopterin_biosynthesis_protein_422984..423214_POSITIVE 331 107 66 69 21 aact:AA00816|5end_lacZ_expression_regulator_560900..561130_POSITIVE 323 158 112 159 101 aact:AA01753|5end_conserved_hypothetical_protein_1185322..1185552_POSITIVE 322 154 111 176 127 aact:AA01867|5end_thiamine_transport_ATP-binding_protein_1254853..1255083_POSITIVE 319 160 119 130 80 aact:AA01101|5end_stationary_phase_survival_protein_SurA_759483..759713_POSITIVE 318 156 117 166 128 aact:AA01913|5end_GMP_synthase_1288535..1288765_POSITIVE 316 50 8 54 5 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 314 110 66 217 166 aact:AA01905|5end_hypothetical_protein_1285306..1285536_POSITIVE 311 185 145 60 13 aact:AA02142|5end_outer_membrane_protein_OprM_precursor_1466037..1466267_POSITIVE 311 188 147 55 3 aact:AA01705|5end_beta-galactosidase_1157643..1157873_POSITIVE 310 180 133 90 41 aact:AA01546|5end_deoxyribose_operon_repressor_1035494..1035724_POSITIVE 309 180 133 99 46 aact:AA01107|5end_adenylosuccinate_lyase_762310..762540_POSITIVE 305 189 145 83 31 aact:AA00164|5end_dephospho-CoA_kinase_(dephosphocoenzyme_A_kinase)_116745..116975_POSITIVE 304 150 105 149 95 aact:AA02899|5end_oligopeptide_ABC_transporter,_ATP-binding_protein_2030063..2030293_POSITIVE 303 170 130 197 153 aact:AA00244|5end_conserved_hypothetical_protein_(possible_deoxyribonuclease,_possible_hydrolase)_172043..172273_POSITIVE 302 117 80 112 58 aact:AA01891|5end_pyridoxine_kinase_1275922..1276152_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 158 112 149 91 aact:AA01751|3end_conserved_hypothetical_protein_1185392..1185542_POSITIVE 316 164 121 58 1 aact:AA01099|3end_dimethyladenosine_transferase_759482..759632_POSITIVE 315 189 148 134 98 aact:AA02666|3end_DNA_helicase_II_1856583..1856733_POSITIVE 309 180 133 72 19 aact:AA01106|3end_conserved_hypothetical_protein_762363..762513_POSITIVE 304 150 105 149 95 aact:AA02898|3end_oligopeptide_transport_ATP-binding_protein_2030143..2030293_POSITIVE 302 117 80 77 23 aact:AA01890|3end_cell-cycle_protein_1275967..1276117_POSITIVE 299 185 141 138 89 aact:AA00015|3end_malate_dehydrogenase_8333..8483_POSITIVE 292 184 153 87 55 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 292 170 127 57 9 aact:AA00374|3end_short-chain_fatty_acids_transporter_253101..253251_POSITIVE 287 150 101 41 2 aact:AA00820|3end_succinyl-diaminopimelate_desuccinylase_564536..564686_POSITIVE 287 188 146 69 16 aact:AA00538|3end_hypothetical_protein_369111..369261_POSITIVE 286 178 131 127 84 aact:AA00480|3end_mannose-specific_phosphotransferase_system_IID_335199..335349_POSITIVE 280 185 146 37 1 aact:AA02141|3end_ABC_transporter,_permease_protein_1466094..1466244_POSITIVE 279 177 132 120 67 aact:AA02674|3end_formate_dehydrogenase-related_protein_1860732..1860882_POSITIVE 277 153 114 70 23 aact:AA02094|3end_glycogen_phosphorylase;_glycogen_synthase_1428778..1428928_POSITIVE 276 119 81 119 78 aact:AA01966|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1331514..1331664_POSITIVE 275 176 137 44 10 aact:AA01018|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_712300..712450_POSITIVE 274 199 151 39 3 aact:AA00575|3end_shikimate_5-dehydrogenase_394093..394243_POSITIVE 273 179 136 142 80 aact:AA01863|3end_hypothetical_protein_1252255..1252405_POSITIVE 273 180 136 95 34 aact:AA01177|3end_beta-ketoacyl-ACP_synthase_IV_808053..808203_POSITIVE