Origin IGS: gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgcatctccgtaatagaaaagcaatcggtttgtttttccagtactgcattgggaatatctgccgaagtcgtgcaggaggccgaggagttcggcggctaaacttaaatttagttttgaggcaagctgtccggcaatggaagaggtttcgaataaatgatcaataagtaactgccgtaatccattggactggcgcacgtgtgcaatcgcatttctactcatcgcggtttcctttaggtcaaaaaatcggcctaacttttttagcaatagcatttttaattatgggaggaggatagcaaaaaacattcagcgccaccaaacagataaattcaaatttgcgacctccctcacactttcccccccactctgaaaattccccatttcatgctaaagttagcgcacattttttcataagggttcatc Mask Tandem Repeat Region ================================================ gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Find is-nt database================================================ Query_seq: AA01857:AA01858|AA01857:AA01858:glutamate-ammonia-ligase adenylyltransferase:conserved hypothetical protein:->->:1250418..1250838 421 gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01857:AA01858|AA01857:AA01858:glutamate-ammonia-ligase adenylyltransferase:conserved hypothetical protein:->->:1250418..1250838 421 gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01857:AA01858|AA01857:AA01858:glutamate-ammonia-ligase adenylyltransferase:conserved hypothetical protein:->->:1250418..1250838 421 gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 212 End: 310 ................................................................................................................................................................................................................... M R L H T C A S P M D Y G S Y L L I I Y S K P L P L P D S L P Q N ............................................................................................................... Protein_Len: 50 Strand: + Start: 270 End: 419 ............................................................................................................................................................................................................................................................................. M R N L F H C R T A C L K T K F K F S R R T P R P P A R L R Q I F P M Q Y W K N K P I A F L L R R C .. Protein_Len: 60 Strand: + Start: 151 End: 420 ...................................................................................................................................................... M L L L K K L G R F F D L K E T A M S R N A I A H V R Q S N G L R Q L L I D H L F E T S S I A G Q L A S K L N L S L A A . Protein_Len: 31 Strand: - Start: 325 End: 417 .................................................................................................................................................................................................................................................................................................................................... G G F E E A E Q V V E A S I G L A T S S F C V S Q K E I V S M .... Protein_Len: 37 Strand: - Start: 267 End: 377 .......................................................................................................................................................................................................................................................................... K N S V E E M A P C S A E F S F K L K A A S S R P R R C S K P L Y E W H M ............................................ Protein_Len: 54 Strand: - Start: 260 End: 421 ................................................................................................................................................................................................................................................................... Q D N I R F R K W Q R V A Q R L V L N L N L R R V G R G G A R S R C I N G I C Y Q F F L G I A K R N R L H M Protein_Len: 38 Strand: - Start: 131 End: 244 .................................................................................................................................. G G G M I L F A I A L F T L G I K Q G L P F R S S Y F H S Q V R A G T W H M ................................................................................................................................................................................. Protein_Len: 60 Strand: - Start: 57 End: 260 ........................................................ T A F K F K D T Q H R Q I N K A I R R G Y N F I S N S F F N P R N K S R F S V A I L L F A I A C T R W D L P N R C N S M ................................................................................................................................................................. Protein_Len: 33 Strand: - Start: 2 End: 100 . H V R I F F H A S V K A H F P S N E S H P P F H S P P R L N S N M ................................................................................................................................................................................................................................................................................................................................. gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa 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================================================ gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 45 HP_score: -3.5 Tail_Score: -3.02511 Start: 383 End: 405 Full_Region: CCCAATGCAGTACTG GAAAAACAA ACCGA TTGCTTTTC TATTACGGAGATGCA ..............................................................................................................................................................................................................................................................................................................................................................................................GAAAAACAAACCGATTGCTTTTC................ Find igs database================================================ Query_seq: AA01857:AA01858|AA01857:AA01858:glutamate-ammonia-ligase adenylyltransferase:conserved hypothetical protein:->->:1250418..1250838 421 gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Intra-Species Hit: Count: 1 Min: 1 Max: 421 Len: 421 Subject: aact_AA01857_AA01858|glutamate-ammonia-ligase adenylyltransferase:conserved hypothetical protein|POSITIVE:POSITIVE|[1250418,1250838]|421 HSP 1 e-value: 0.0 bit: 793.0 Len: 421 Query Start:1 Query End:421 Subject Strand: POSITIVE Subject Start: 1 Subject End: 421 gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtnnnnnnnaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa gatgaacccttatgaaaaaatgtgcgctaactttagcatgaaatggggaattttcagagtgggggggaaagtgtgagggaggtcgcaaatttgaatttatctgtttggtggcgctgaatgttttttgctatcctcctcccataattaaaaatgctattgctaaaaaagttaggccgattttttgacctaaaggaaaccgcgatgagtagaaatgcgattgcacacgtgcgccagtccaatggattacggcagttacttattgatcatttattcgaaacctcttccattgccggacagcttgcctcaaaactaaatttaagtttagccgccgaactcctcggcctcctgcacgacttcggcagatattcccaatgcagtactggaaaaacaaaccgattgcttttctattacggagatgcaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGAACCCUUAUGAAAAAAUGUGCGCUAACUUUAGCAUGAAAUGGGGAAUUUUCAGAGUGGGGGGGAAAGUGUGAGGGAGGUCGCAAAUUUGAAUUUAUCUGUUUGGUGGCGCUGAAUGUUUUUUGCUAUCCUCCUCCCAUAAUUAAAAAUGCUAUUGCUAAAAAAGUUAGGCCGAUUUUUUGACCUAAAGGAAACCGCGAUGAGUAGAAAUGCGAUUGCACACGUGCGCCAGUCCAAUGGAUUACGGCAGUUACUUAUUGAUCAUUUAUUCGAAACCUCUUCCAUUGCCGGACAGCUUGCCUCAAAACUAAAUUUAAGUUUAGCCGCCGAACUCCUCGGCCUCCUGCACGACUUCGGCAGAUAUUCCCAAUGCAGUACUGGAAAAACAAACCGAUUGCUUUUCUAUUACGGAGAUGCAA ......................((((((.......((((......((((((..((...(((((((((...(.(.(((...(((.(((((((((((((((....(((((.(((((((..............(((...................((....))........(((((.(((....))).))))).)))..((((((((.(.(((...(..(((((...((((..(((......)))..)))))))))..)...((((........))))....))).)))))).))).))))..))))))))..))))))))))))).)).)))...)))).)..)))))).)))..(....)..)).)))))).)))).(((.(((((((.(((.....))).))))))).)))..)).)))). (-107.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGCAUCUCCGUAAUAGAAAAGCAAUCGGUUUGUUUUUCCAGUACUGCAUUGGGAAUAUCUGCCGAAGUCGUGCAGGAGGCCGAGGAGUUCGGCGGCUAAACUUAAAUUUAGUUUUGAGGCAAGCUGUCCGGCAAUGGAAGAGGUUUCGAAUAAAUGAUCAAUAAGUAACUGCCGUAAUCCAUUGGACUGGCGCACGUGUGCAAUCGCAUUUCUACUCAUCGCGGUUUCCUUUAGGUCAAAAAAUCGGCCUAACUUUUUUAGCAAUAGCAUUUUUAAUUAUGGGAGGAGGAUAGCAAAAAACAUUCAGCGCCACCAAACAGAUAAAUUCAAAUUUGCGACCUCCCUCACACUUUCCCCCCCACUCUGAAAAUUCCCCAUUUCAUGCUAAAGUUAGCGCACAUUUUUUCAUAAGGGUUCAUC .......((((((((.(((((((..(((((..((.((((((((.....)))))))).))..))))).....(((.((((((((.(((...((((((....(((((...(((..((((((((...((.((((....))))))..))))))))....)))....)))))..))))))...)))..((((...((((....))))..)).)).............)))))))).(((((((........)))))))........)))...)).))))).)))))))).(((((...(((((...........(........).((.....))...)))))..)))))..............(((....(((((........))))).((((....))))................)))...... (-107.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 377 364 321 222 166 aact:AA00535|5end_hypothetical_protein_365695..365925_POSITIVE 367 362 326 53 10 aact:AA00069|5end_conserved_hypothetical_protein_52465..52695_POSITIVE 366 363 321 231 183 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 361 304 278 68 47 aact:AA01323|5end_50S_ribosomal_protein_L28_894247..894477_POSITIVE 360 85 43 202 164 aact:AA00188|5end_conserved_hypothetical_protein_132660..132890_POSITIVE 352 238 196 203 160 aact:AA02933|5end_conserved_hypothetical_protein_(HesA/MoeB/ThiF_family_protein)_2053467..2053697_POSITIVE 347 75 36 49 16 aact:AA02433|5end_hypothetical_protein_1678300..1678530_POSITIVE 347 366 325 198 138 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 345 75 35 101 59 aact:AA01463|5end_probable_transport_protein_982732..982962_POSITIVE 343 361 321 228 180 aact:AA02763|5end_DNA_polymerase_III,_epsilon_subunit_1933696..1933926_POSITIVE 342 255 213 78 30 aact:AA02964|5end_opacity_associated_protein_A_2072738..2072968_POSITIVE 342 250 209 185 138 aact:AA01845|5end_gamma-glutamyltranspeptidase_precursor_1239841..1240071_POSITIVE 342 352 321 217 176 aact:AA00932|5end_ribose_ABC_transporter,_periplasmic_protein_643177..643407_POSITIVE 341 396 351 182 123 aact:AA03000|5end_uracil-DNA_glycosylase_(UDG)_2095076..2095306_POSITIVE 340 238 197 223 176 aact:AA01556|5end_ABC_transporter_ATP-binding_protein_1044218..1044448_POSITIVE 339 370 325 87 48 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 338 379 338 57 6 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 338 364 325 216 167 aact:AA01421|5end_phosphoglycolate_phosphatase_955055..955285_POSITIVE 337 370 324 74 24 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 337 358 326 33 3 aact:AA00729|5end_possible_hemolysin_(TlyC-like)_500204..500434_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 384 346 121 81 aact:AA00574|3end_regulatory_protein_392381..392531_POSITIVE 347 75 36 144 111 aact:AA02433|3end_hypothetical_protein_1678475..1678625_POSITIVE 345 75 35 68 26 aact:AA01462|3end_xylose_operon_regulatory_protein_982779..982929_POSITIVE 342 250 209 94 47 aact:AA01843|3end_sensor_protein;_probable_two-component_system_sensor_histidine_kinase_1239830..1239980_POSITIVE 342 352 321 141 100 aact:AA00931|3end_elongation_factor_Tu_(tufA)_643181..643331_POSITIVE 339 360 325 32 4 aact:AA02705|3end_hypothetical_protein_1886928..1887078_POSITIVE 339 370 325 56 17 aact:AA01546|3end_deoxyribose_operon_repressor_1036320..1036470_POSITIVE 338 370 325 101 66 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 337 109 62 132 82 aact:AA01086|3end_hypothetical_protein_751591..751741_POSITIVE 334 86 42 120 70 aact:AA02422|3end_conserved_hypothetical_protein_1668426..1668576_POSITIVE 334 86 42 120 70 aact:AA02298|3end_conserved_hypothetical_protein_1571000..1571150_POSITIVE 334 86 42 120 70 aact:AA00622|3end_conserved_hypothetical_protein_430104..430254_POSITIVE 334 86 42 120 70 aact:AA00413|3end_conserved_hypothetical_protein_280554..280704_POSITIVE 333 370 324 118 65 aact:AA02190|3end_hydrogenase-2_component_protein_1493271..1493421_POSITIVE 332 237 192 138 93 aact:AA01673|3end_riboflavin_synthase,_alpha_chain_1132093..1132243_POSITIVE 329 140 100 71 37 aact:AA01572|3end_peptide_ABC_transporter,_permease_protein_1059838..1059988_POSITIVE 329 363 327 78 34 aact:AA00933|3end_ribose_ABC_transporter,_ATP-binding_protein_645197..645347_POSITIVE 319 380 333 100 43 aact:AA01357|3end_5-formyltetrahydrofolate_cyclo-ligase-family_protein_919785..919935_POSITIVE 319 360 321 55 11 aact:AA00058|3end_cytochrome_c-type_biogenesis_protein_45478..45628_POSITIVE 314 359 319 104 51 aact:AA01891|3end_pyridoxine_kinase_1276784..1276934_POSITIVE