Origin IGS: aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta .........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 taacggtttgccgataaagaacccaccccgaaagaatgcttcagatatacgataaactccttgagttgcccttgtttcttggtattggtgttgccgatttggctgaaatcgtcagtaccacgaagttcgggtttctcaaattgaaacccaaagaaacattggtaaaggagaacgacaggggcggcagactctatttcctt Mask Tandem Repeat Region ================================================ aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Find is-nt database================================================ Query_seq: PI0846:PI0847|PI0846:PI0847:transcription regulator, CRP family:thiamine biosynthesis lipoprotein, ApbE:->->:781070..781269 200 aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0846:PI0847|PI0846:PI0847:transcription regulator, CRP family:thiamine biosynthesis lipoprotein, ApbE:->->:781070..781269 200 aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0846:PI0847|PI0846:PI0847:transcription regulator, CRP family:thiamine biosynthesis lipoprotein, ApbE:->->:781070..781269 200 aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 14 End: 157 ............. M P P L S F S F T N V S L G F N L R N P N F V V L T I S A K S A T P I P R N K G N S R S L S Y I ........................................... Protein_Len: 60 Strand: + Start: 7 End: 198 ...... M E S A A P V V L L Y Q C F F G F Q F E K P E L R G T D D F S Q I G N T N T K K Q G Q L K E F I V Y L K H S F G V G S L .. Protein_Len: 30 Strand: - Start: 60 End: 149 ........................................................... N S F G S S R P V S S K L W I P L V L V L F C P C S L S N M ................................................... Protein_Len: 55 Strand: - Start: 1 End: 165 L F Y L R G G R D N E K V L T E K P K L K L F G F K T T S V I E A L D A V G I G L F L P L E L L K D Y I Q L M ................................... aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta 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================================================ aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0846:PI0847|PI0846:PI0847:transcription regulator, CRP family:thiamine biosynthesis lipoprotein, ApbE:->->:781070..781269 200 aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Intra-Species Hit: Count: 1 Min: 1 Max: 200 Len: 200 Subject: pint_PI0846_PI0847|transcription regulator, CRP family:thiamine biosynthesis lipoprotein, ApbE|POSITIVE:POSITIVE|[781070,781269]|200 HSP 1 e-value: 1.0E-109 bit: 396.0 Len: 200 Query Start:1 Query End:200 Subject Strand: POSITIVE Subject Start: 1 Subject End: 200 aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta aaggaaatagagtctgccgcccctgtcgttctcctttaccaatgtttctttgggtttcaatttgagaaacccgaacttcgtggtactgacgatttcagccaaatcggcaacaccaataccaagaaacaagggcaactcaaggagtttatcgtatatctgaagcattctttcggggtgggttctttatcggcaaaccgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGGAAAUAGAGUCUGCCGCCCCUGUCGUUCUCCUUUACCAAUGUUUCUUUGGGUUUCAAUUUGAGAAACCCGAACUUCGUGGUACUGACGAUUUCAGCCAAAUCGGCAACACCAAUACCAAGAAACAAGGGCAACUCAAGGAGUUUAUCGUAUAUCUGAAGCAUUCUUUCGGGGUGGGUUCUUUAUCGGCAAACCGUUA ......((((((....(((((((.......((((((..((..((((((((((((((((.......)))))))))......((((..((.((((((.....)))))).))..))))......)))))))..))......))))))....(((......)))...........)))))))...))))))(((....)))... (-54.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGGUUUGCCGAUAAAGAACCCACCCCGAAAGAAUGCUUCAGAUAUACGAUAAACUCCUUGAGUUGCCCUUGUUUCUUGGUAUUGGUGUUGCCGAUUUGGCUGAAAUCGUCAGUACCACGAAGUUCGGGUUUCUCAAAUUGAAACCCAAAGAAACAUUGGUAAAGGAGAACGACAGGGGCGGCAGACUCUAUUUCCUU ....(((((((((........(((....(....)......................((((((....((((..(((((((((((((((..(..(((.....)))......)..))))))).........(((((((.......))))))).))))))))..)))))))))).......))).))))))))).......... (-64.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 352 49 10 182 133 pint:PI0337|5end_hypothetical_protein_314732..314962_POSITIVE 329 200 151 216 160 pint:PI1669|5end_hypothetical_protein_1581257..1581487_POSITIVE 323 120 72 131 76 pint:PI0791|5end_conserved_hypothetical_protein_728361..728591_POSITIVE 323 129 85 81 37 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 319 179 132 166 121 pint:PI0253|5end_conjugative_transposon_protein,_TraD_248294..248524_POSITIVE 316 29 1 196 165 pint:PI1536|5end_hypothetical_protein_1455555..1455785_POSITIVE 310 59 15 202 156 pint:PI0242|5end_hypothetical_protein_240007..240237_POSITIVE 309 144 102 220 168 pint:PI0393|5end_conserved_hypothetical_protein_358696..358926_POSITIVE 307 113 72 83 24 pint:PI1071|5end_DNA_topoisomerase_III_988290..988520_POSITIVE 306 58 11 58 19 pint:PI1770|5end_4-alpha-glucanotransferase_1697336..1697566_POSITIVE 304 199 151 208 153 pint:PI0288|5end_hypothetical_protein_(possible_ISPg3-related_transposase)_272272..272502_POSITIVE 302 198 164 162 115 pint:PI0336|5end_hypothetical_protein_314499..314729_POSITIVE 299 179 133 52 8 pint:PI1847|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1792006..1792236_POSITIVE 299 58 12 104 48 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 299 30 2 125 92 pint:PI0989|5end_mannose-1-phosphate_guanylyltransferase_912833..913063_POSITIVE 298 99 52 193 149 pint:PI1439|5end_hypothetical_protein_1360009..1360239_POSITIVE 297 40 10 226 196 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 296 133 96 58 19 pint:PI1933|5end_hypothetical_protein_1879925..1880155_POSITIVE 296 115 72 76 25 pint:PI0780|5end_DNA_gyrase,_subunit_A_(DNA_topoisomerase_(ATP-hydrolyzing))_715902..716132_POSITIVE 294 48 10 59 14 pint:PI1945|5end_ribonuclease_HII_1901932..1902162_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 33 1 141 109 pint:PI2075|3end_conserved_hypothetical_protein_2035355..2035505_POSITIVE 323 120 72 75 20 pint:PI0789|3end_NAD-utilizing_dehydrogenase_728385..728535_POSITIVE 316 29 1 62 31 pint:PI1535|3end_response_regulator_1455501..1455651_POSITIVE 313 46 12 71 35 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 310 59 15 151 105 pint:PI0241|3end_possible_tetracycline_resistance_element_/mobilization_regulatory_protein_240036..240186_POSITIVE 307 58 15 148 105 pint:PI0396|3end_possible_tetracycline_resistance_element_mobilization_regulatory_protein,_C-terminal_fragment_362396..362546_POSITIVE 292 196 157 73 22 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 290 59 12 55 5 pint:PI1326|3end_Na+-driven_multidrug_efflux_pump_1245608..1245758_POSITIVE 290 28 4 121 94 pint:PI1065|3end_hypothetical_protein_983650..983800_POSITIVE 290 146 111 38 6 pint:PI0284|3end_flavoprotein_A_270157..270307_POSITIVE 284 191 156 54 15 pint:PI0935|3end_collagenase,_protease_868320..868470_POSITIVE 280 109 61 70 9 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 279 113 71 138 104 pint:PI0392|3end_possible_transcriptional_regulator_358735..358885_POSITIVE 275 198 154 149 100 pint:PI0444|3end_50S_ribosomal_protein_L7/L12_413390..413540_POSITIVE 275 198 154 118 69 pint:PI0445|3end_conserved_hypothetical_protein_413359..413509_POSITIVE 273 132 97 146 118 pint:PI1884|3end_conserved_hypothetical_protein_1827457..1827607_POSITIVE 272 114 71 135 102 pint:PI1979|3end_conserved_hypothetical_protein_1937327..1937477_POSITIVE 270 108 69 108 60 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 268 200 162 76 23 pint:PI1647|3end_hypothetical_protein_1562531..1562681_POSITIVE 268 45 4 74 28 pint:PI0380|3end_conserved_hypothetical_protein_350541..350691_POSITIVE