Origin IGS: aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaagaaataagaaaatgggaagagtacttatgattggcgcaggtggcgttgccacagtagccgcatttaagattgttcagaatcaggacgtgtttactgagttt Mask Tandem Repeat Region ================================================ aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Find is-nt database================================================ Query_seq: PI0556:PI0557|PI0556:PI0557:saccharopine dehydrogenase:conserved hypothetical protein:->->:506221..506326 106 aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0556:PI0557|PI0556:PI0557:saccharopine dehydrogenase:conserved hypothetical protein:->->:506221..506326 106 aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0556:PI0557|PI0556:PI0557:saccharopine dehydrogenase:conserved hypothetical protein:->->:506221..506326 106 aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 1 End: 90 F E T F V D Q N Q V I K F A A V T A V G G A G I M L V R G M ................ aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta 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================================================ aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0556:PI0557|PI0556:PI0557:saccharopine dehydrogenase:conserved hypothetical protein:->->:506221..506326 106 aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: pint_PI0556_PI0557|saccharopine dehydrogenase:conserved hypothetical protein|POSITIVE:POSITIVE|[506221,506326]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta aaactcagtaaacacgtcctgattctgaacaatcttaaatgcggctactgtggcaacgccacctgcgccaatcataagtactcttcccattttcttatttctttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACUCAGUAAACACGUCCUGAUUCUGAACAAUCUUAAAUGCGGCUACUGUGGCAACGCCACCUGCGCCAAUCAUAAGUACUCUUCCCAUUUUCUUAUUUCUUUUA ....((((.((.((.....)).))))))..............(((....(((((...)))))....)))..................................... (-13.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGAAAUAAGAAAAUGGGAAGAGUACUUAUGAUUGGCGCAGGUGGCGUUGCCACAGUAGCCGCAUUUAAGAUUGUUCAGAAUCAGGACGUGUUUACUGAGUUU ....................(((.(((.((((....((((....(((((...)))))....))))....))))))).)))....((((..........)))).... (-23.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 81 41 175 123 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 349 80 37 211 162 pint:PI0471|5end_50S_ribosomal_protein_L24_437736..437966_POSITIVE 349 86 52 43 8 pint:PI0202|5end_DNA_helicase_191753..191983_POSITIVE 336 70 22 79 11 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 336 68 41 182 154 pint:PI0771|5end_conserved_hypothetical_protein_706524..706754_POSITIVE 335 71 40 49 17 pint:PI1933|5end_hypothetical_protein_1879925..1880155_POSITIVE 335 70 24 66 1 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 333 75 33 70 12 pint:PI1671|5end_hypothetical_protein_1586397..1586627_POSITIVE 332 84 41 225 191 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 329 70 29 221 178 pint:PI0206|5end_TPR-repeat-containing_protein_198112..198342_POSITIVE 321 100 57 140 97 pint:PI1241|5end_probable_phosphoesterase_1166365..1166595_POSITIVE 316 70 42 66 38 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 313 68 41 51 23 pint:PI2153|5end_hypothetical_protein_2099392..2099622_POSITIVE 313 68 41 51 23 pint:PI1567|5end_hypothetical_protein_1489229..1489459_POSITIVE 313 68 41 193 165 pint:PI1486|5end_alginate_O-acetylation_protein_1405507..1405737_POSITIVE 313 68 41 177 149 pint:PI0788|5end_3-methyladenine_DNA_glycosylase_(DNA-3-methyladenine_glycosylase_I)_726152..726382_POSITIVE 312 71 40 86 37 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 308 78 40 39 1 pint:PI1588|5end_DNA_polymerase_III,_epsilon_chain_1516302..1516532_POSITIVE 308 70 23 172 119 pint:PI0528|5end_hypothetical_protein_482791..483021_POSITIVE 304 100 52 128 60 pint:PI1550|5end_conserved_hypothetical_protein_1467360..1467590_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 87 42 145 96 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 400 87 42 145 96 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 341 74 36 145 99 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 341 69 33 151 117 pint:PI0331|3end_hypothetical_protein_312575..312725_POSITIVE 336 70 22 70 2 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 336 68 41 133 105 pint:PI1814|3end_hypothetical_protein_1753233..1753383_POSITIVE 329 70 29 124 81 pint:PI0205|3end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_198095..198245_POSITIVE 324 90 41 91 28 pint:PI0805|3end_conserved_hypothetical_protein_743807..743957_POSITIVE 317 86 42 97 51 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 316 70 42 42 14 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 316 70 42 42 14 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 316 60 12 127 79 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 308 90 41 138 82 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 304 70 23 55 1 pint:PI1875|3end_hypothetical_protein_1819106..1819256_POSITIVE 304 100 52 70 2 pint:PI1549|3end_conserved_hypothetical_protein_1467382..1467532_POSITIVE 304 73 33 131 80 pint:PI1493|3end_conserved_hypothetical_protein_1412818..1412968_POSITIVE 297 68 41 107 79 pint:PI1356|3end_hypothetical_protein_1273340..1273490_POSITIVE 294 60 12 59 9 pint:PI0753|3end_hypothetical_protein_683851..684001_POSITIVE 290 69 23 151 103 pint:PI1087|3end_conserved_hypothetical_protein_1011557..1011707_POSITIVE 289 88 41 118 56 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE