Origin IGS: taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata .........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 tatgcgccctgctttttcaaacacggtaacagcggcatcgggctgtgtggtctttgccgaaatggcagcgaaaaagcctgctgcgcctcctcctataatcgcaatgttctgcatttactctatttctaattgtttctacggtagctacaaagttacgataattgctccaagcgtacaaacgatagtgtgcaaaaagacggttgggtacataaaaagcaaggcacaatttgctgttttgcattatgcaaagaacaaattgcgccttttatataaaagaaggagaggggtttta Mask Tandem Repeat Region ================================================ taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Find is-nt database================================================ Query_seq: PI1767:PI1768|PI1767:PI1768:fructokinase, pfkB family:conserved hypothetical protein:->->:1695304..1695595 292 taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1767:PI1768|PI1767:PI1768:fructokinase, pfkB family:conserved hypothetical protein:->->:1695304..1695595 292 taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1767:PI1768|PI1767:PI1768:fructokinase, pfkB family:conserved hypothetical protein:->->:1695304..1695595 292 taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 24 End: 137 ....................... M K G A I C S L H N A K Q Q I V P C F L C T Q P S F C T L S F V R L E Q L S ........................................................................................................................................................... Protein_Len: 60 Strand: + Start: 49 End: 273 ................................................ M M Q N S K L C L A F Y V P N R L F A H Y R L Y A W S N Y R N F V A T V E T I R N R V N A E H C D Y R R R R S R L F R C ................... Protein_Len: 38 Strand: + Start: 179 End: 292 .................................................................................................................................................................................. M Q N I A I I G G G A A G F F A A I S A K T T Q P D A A V T V F E K A G R I Protein_Len: 30 Strand: - Start: 167 End: 256 ...................................................................................................................................................................... F Y L L H L V N R N Y S S A C C A K E S G N R C L G C L G M .................................... Protein_Len: 60 Strand: - Start: 1 End: 291 T Q V S P A I I T V K Y S G Y F C N S I S Y I C F M A I I P P P A A P K K A A M E A F V V C G S A A T V T N S F A P R M . taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata 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================================================ taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 86 HP_score: -6.8 Tail_Score: -4.96848 Start: 26 End: 77 Full_Region: CTCCTTCTTTTATAT AAAAGGCGCAATTTGTTCTTTGCA TAA TGCAAAACAGCAAATTGTGCCTTGC TTTTTATGTACCCAA .........................AAAAGGCGCAATTTGTTCTTTGCATAATGCAAAACAGCAAATTGTGCCTTGC....................................................................................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -12.0 Tail_Score: -3.91281 Start: 30 End: 73 Full_Region: TTCTTTTATATAAAA GGCGCAATTTGTTCTTTGCA TAA TGCAAAACAGCAAATTGTGCC TTGCTTTTTATGTAC .............................GGCGCAATTTGTTCTTTGCATAATGCAAAACAGCAAATTGTGCC........................................................................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -9.8 Tail_Score: -4.52589 Start: 30 End: 73 Full_Region: gtacataaaaagcaa ggcacaatttgctgttttgca tta tgcaaagaacaaattgcgcc ttttatataaaagaa .............................ggcacaatttgctgttttgcattatgcaaagaacaaattgcgcc........................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI1767:PI1768|PI1767:PI1768:fructokinase, pfkB family:conserved hypothetical protein:->->:1695304..1695595 292 taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Intra-Species Hit: Count: 1 Min: 1 Max: 292 Len: 292 Subject: pint_PI1767_PI1768|fructokinase, pfkB family:conserved hypothetical protein|POSITIVE:POSITIVE|[1695304,1695595]|292 HSP 1 e-value: 1.0E-164 bit: 579.0 Len: 292 Query Start:1 Query End:292 Subject Strand: POSITIVE Subject Start: 1 Subject End: 292 taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata taaaacccctctccttcttttatataaaaggcgcaatttgttctttgcataatgcaaaacagcaaattgtgccttgctttttatgtacccaaccgtctttttgcacactatcgtttgtacgcttggagcaattatcgtaactttgtagctaccgtagaaacaattagaaatagagtaaatgcagaacattgcgattataggaggaggcgcagcaggctttttcgctgccatttcggcaaagaccacacagcccgatgccgctgttaccgtgtttgaaaaagcagggcgcata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAACCCCUCUCCUUCUUUUAUAUAAAAGGCGCAAUUUGUUCUUUGCAUAAUGCAAAACAGCAAAUUGUGCCUUGCUUUUUAUGUACCCAACCGUCUUUUUGCACACUAUCGUUUGUACGCUUGGAGCAAUUAUCGUAACUUUGUAGCUACCGUAGAAACAAUUAGAAAUAGAGUAAAUGCAGAACAUUGCGAUUAUAGGAGGAGGCGCAGCAGGCUUUUUCGCUGCCAUUUCGGCAAAGACCACACAGCCCGAUGCCGCUGUUACCGUGUUUGAAAAAGCAGGGCGCAUA ..........((((((((..((((((((((((((((((((((.(((((.....)))))..)))))))))))))).....))))))))......(((..(((((((.......((((.((((..(((.((((...........))))..))).)))).))))..(((....)))......)))))))....))).....))))))))((((.....((((((((..((((.....)))).....((((((((........)))))....)))...))))))))...))))... (-84.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUGCGCCCUGCUUUUUCAAACACGGUAACAGCGGCAUCGGGCUGUGUGGUCUUUGCCGAAAUGGCAGCGAAAAAGCCUGCUGCGCCUCCUCCUAUAAUCGCAAUGUUCUGCAUUUACUCUAUUUCUAAUUGUUUCUACGGUAGCUACAAAGUUACGAUAAUUGCUCCAAGCGUACAAACGAUAGUGUGCAAAAAGACGGUUGGGUACAUAAAAAGCAAGGCACAAUUUGCUGUUUUGCAUUAUGCAAAGAACAAAUUGCGCCUUUUAUAUAAAAGAAGGAGAGGGGUUUUA .....(((((.(((((((......((.....((((((...((((......((.(((((.....))))).))...))))))))))....))...(((((.(((((((((((((((..........(((((((((((.....((((((....)))))).....((((.((...(((....)))...).).))))..)))))))))))..........((((((((........))))))))...))))..))))))..)))))....))))).....))))))).))))).... (-81.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 398 228 181 83 30 pint:PI0018|5end_hypothetical_protein_23022..23252_POSITIVE 383 239 191 68 29 pint:PI0774|5end_phosphoserine_aminotransferase_(phosphoserine_transaminase)_709497..709727_POSITIVE 380 250 201 117 70 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 368 233 191 111 70 pint:PI0919|5end_conserved_hypothetical_protein_849298..849528_POSITIVE 367 250 202 67 18 pint:PI0250|5end_hypothetical_protein_246946..247176_POSITIVE 362 261 227 111 62 pint:PI1381|5end_conserved_hypothetical_protein_1303060..1303290_POSITIVE 360 288 242 96 40 pint:PI0424|5end_methylated-DNA--[protein]-cysteine_S-methyltransferase_388429..388659_POSITIVE 352 236 191 172 113 pint:PI0094|5end_protoporphyrinogen_oxidase_89571..89801_POSITIVE 352 236 191 98 39 pint:PI0091|5end_hypothetical_protein_89497..89727_POSITIVE 351 269 224 56 11 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 349 239 191 87 37 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 347 250 206 198 157 pint:PI0733|5end_membrane_protein;_predicted_exporter_664389..664619_POSITIVE 346 237 191 155 103 pint:PI1686|5end_hypothetical_protein_1601594..1601824_POSITIVE 345 229 181 85 32 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 342 219 172 92 34 pint:PI2028|5end_shikimate_kinase_1982162..1982392_POSITIVE 341 287 243 204 147 pint:PI0338|5end_hypothetical_protein_315337..315567_POSITIVE 340 260 211 47 6 pint:PI1664|5end_conserved_hypothetical_protein_1577285..1577515_POSITIVE 340 258 211 73 24 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 340 260 211 47 6 pint:PI0370|5end_conserved_hypothetical_protein_340453..340683_POSITIVE 340 270 222 70 18 pint:PI0035|5end_NAD-dependent_protein_deacetylase,_SIR2_family_37873..38103_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 458 75 31 63 19 pint:PI1767|3end_fructokinase,_pfkB_family_1695243..1695393_POSITIVE 380 250 201 80 33 pint:PI1540|3end_hypothetical_protein_1461771..1461921_POSITIVE 373 220 173 104 61 pint:PI1408|3end_glucose-1-phosphate_thymidylyltransferase_1329761..1329911_POSITIVE 373 217 181 77 40 pint:PI0047|3end_phosphomethylpyrimidine_kinase_46781..46931_POSITIVE 367 250 202 67 18 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 364 230 186 63 4 pint:PI2169|3end_hypothetical_protein_2112325..2112475_POSITIVE 361 290 248 151 94 pint:PI1245|3end_hypothetical_protein_1171492..1171642_POSITIVE 352 239 207 139 93 pint:PI1143|3end_hypothetical_protein_1070504..1070654_POSITIVE 350 288 249 58 17 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 347 250 206 96 55 pint:PI0732|3end_conserved_hypothetical_protein_664367..664517_POSITIVE 345 229 181 94 41 pint:PI0300|3end_transposase_285761..285911_POSITIVE 342 238 192 70 20 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 337 237 205 108 70 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 336 240 198 74 32 pint:PI1892|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_1835547..1835697_POSITIVE 335 288 245 151 110 pint:PI1240|3end_probable_Xaa-Pro_dipeptidase_(aminopeptidase_P)_1166272..1166422_POSITIVE 334 150 101 75 12 pint:PI0454|3end_hypothetical_protein_426963..427113_POSITIVE 327 260 211 98 39 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 324 219 179 92 34 pint:PI2008|3end__ABC_transporter,_ATP-binding_protein_1967961..1968111_POSITIVE 324 230 182 149 102 pint:PI1046|3end_hypothetical_protein_966081..966231_POSITIVE 324 236 194 124 86 pint:PI0735|3end_ABC_transporter,_ATP-binding_/_permease_670591..670741_POSITIVE