Origin IGS: aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattaaaggttagaggaggtctgattaggaattgaaaagctctaattaggattagcaaacaaaaggaaacaacagatatttttcagcctgcaagaaatattttcttgcaggctttcttatttctatgccataatctaacatctt Mask Tandem Repeat Region ================================================ aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Find is-nt database================================================ Query_seq: PI0588:PI0589|PI0588:PI0589:hypothetical protein:asparaginyl-tRNA synthetase (asparagine--tRNA ligase):->->:535486..535630 145 aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0588:PI0589|PI0588:PI0589:hypothetical protein:asparaginyl-tRNA synthetase (asparagine--tRNA ligase):->->:535486..535630 145 aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0588:PI0589|PI0588:PI0589:hypothetical protein:asparaginyl-tRNA synthetase (asparagine--tRNA ligase):->->:535486..535630 145 aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 2 End: 100 . S T L N H C L F L F A Q L F I N R A P Q F I D T T E K Q K S I R M ............................................. aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta 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================================================ aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -18.2 Tail_Score: -4.65458 Start: 33 End: 59 Full_Region: aacagatatttttca gcctgcaagaaa tat tttcttgcaggc tttcttatttctatg ................................gcctgcaagaaatattttcttgcaggc...................................................................................... Find igs database================================================ Query_seq: PI0588:PI0589|PI0588:PI0589:hypothetical protein:asparaginyl-tRNA synthetase (asparagine--tRNA ligase):->->:535486..535630 145 aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Intra-Species Hit: Count: 1 Min: 1 Max: 145 Len: 145 Subject: pint_PI0588_PI0589|hypothetical protein:asparaginyl-tRNA synthetase (asparagine--tRNA ligase)|POSITIVE:POSITIVE|[535486,535630]|145 HSP 1 e-value: 5.0E-77 bit: 287.0 Len: 145 Query Start:1 Query End:145 Subject Strand: POSITIVE Subject Start: 1 Subject End: 145 aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta aagatgttagattatggcatagaaataagaaagcctgcaagaaaatatttcttgcaggctgaaaaatatctgttgtttccttttgtttgctaatcctaattagagcttttcaattcctaatcagacctcctctaacctttaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAUGUUAGAUUAUGGCAUAGAAAUAAGAAAGCCUGCAAGAAAAUAUUUCUUGCAGGCUGAAAAAUAUCUGUUGUUUCCUUUUGUUUGCUAAUCCUAAUUAGAGCUUUUCAAUUCCUAAUCAGACCUCCUCUAACCUUUAAUUA .(((.((((((...(((((....(((((((.((((((((((((.....))))))))))))...(((((.....)))))..))))))))))))...((.(((((.............))))).))......)))))).)))..... (-33.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAAAGGUUAGAGGAGGUCUGAUUAGGAAUUGAAAAGCUCUAAUUAGGAUUAGCAAACAAAAGGAAACAACAGAUAUUUUUCAGCCUGCAAGAAAUAUUUUCUUGCAGGCUUUCUUAUUUCUAUGCCAUAAUCUAACAUCUU .........((((((.....((((((((((..((....)).))))))))))....(((.......(....)...(((.((.....((((((((((((.....)))))))))))).....)).))).))).....))))))..... (-38.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 265 111 71 53 7 pint:PI1654|5end_hypothetical_protein_1567669..1567899_POSITIVE 258 92 51 138 100 pint:PI1398|5end_probable_imidazolonepropionase_1319429..1319659_POSITIVE 251 108 62 204 156 pint:PI1959|5end_hypothetical_protein_1917708..1917938_POSITIVE 249 40 3 135 105 pint:PI0930|5end_alpha-L-fucosidase_precursor_860977..861207_POSITIVE 248 78 34 194 139 pint:PI0831|5end_hypothetical_protein_768129..768359_POSITIVE 246 88 43 114 73 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 245 61 29 153 112 pint:PI0705|5end_conserved_hypothetical_protein;_possible_lipoprotein_641274..641504_POSITIVE 242 118 71 135 79 pint:PI1863|5end_phosphoribosylformylglycinamidine_synthase_1806674..1806904_POSITIVE 234 93 51 120 76 pint:PI1415|5end_cation_transporting_ATPase/E1-E2_ATPase_1333939..1334169_POSITIVE 234 93 51 94 50 pint:PI1414|5end_conserved_hypothetical_protein_1333913..1334143_POSITIVE 234 91 51 124 72 pint:PI0779|5end_predicted_TPR-repeat-containing_protein_714554..714784_POSITIVE 234 91 51 115 63 pint:PI0778|5end_hypothetical_protein_714545..714775_POSITIVE 231 90 54 193 156 pint:PI1768|5end_conserved_hypothetical_protein_1695456..1695686_POSITIVE 230 90 51 143 90 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 229 80 31 89 34 pint:PI1402|5end_3-deoxy-7-phosphoheptulonate_synthase_1322935..1323165_POSITIVE 228 60 14 134 87 pint:PI2146|5end_prolipoprotein_diacylglyceryl_transferase_2092402..2092632_POSITIVE 228 77 33 105 49 pint:PI0221|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_212356..212586_POSITIVE 225 93 51 206 162 pint:PI2099|5end_D-alanyl-D-alanine_dipeptidase_2052409..2052639_POSITIVE 223 43 1 185 153 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 223 90 48 77 29 pint:PI0098|5end_conserved_hypothetical_protein_(possible_glycosyl/glycerophosphate_transferase)_94622..94852_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 60 19 59 18 pint:PI0588|3end_hypothetical_protein_535425..535575_POSITIVE 291 90 47 74 30 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 258 92 51 60 22 pint:PI1397|3end_histidine_ammonia-lyase_1319431..1319581_POSITIVE 249 40 3 126 96 pint:PI0929|3end_copper_homeostasis_protein_861048..861198_POSITIVE 244 87 45 49 5 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 239 97 58 101 71 pint:PI1379|3end_hypothetical_protein_1302292..1302442_POSITIVE 236 130 84 133 82 pint:PI1550|3end_conserved_hypothetical_protein_1467703..1467853_POSITIVE 234 93 51 60 16 pint:PI1413|3end_hypothetical_protein_1333959..1334109_POSITIVE 224 61 21 75 31 pint:PI0141|3end_glutamine_amidotransferase_involved_in_pyridoxine_biosynthesis_133308..133458_POSITIVE 223 90 48 57 9 pint:PI0097|3end_aspartate_aminotransferase_94682..94832_POSITIVE 222 58 12 53 7 pint:PI0268|3end_lysozyme-related_protein_259790..259940_POSITIVE 220 60 15 71 26 pint:PI0890|3end_ribose_5-phosphate_isomerase_B_820931..821081_POSITIVE 219 118 71 149 91 pint:PI0729|3end_integrase_661765..661915_POSITIVE 219 34 2 55 26 pint:PI0076|3end_conserved_hypothetical_protein_76192..76342_POSITIVE 218 40 1 125 78 pint:PI1099|3end_low_molecular_weight_protein-tyrosine-phosphatase_1023636..1023786_POSITIVE 216 109 68 139 101 pint:PI0639|3end_small_heat_shock_protein_583165..583315_POSITIVE 214 80 33 143 93 pint:PI1539|3end_3-phosphoshikimate_1-carboxyvinyltransferase_1461134..1461284_POSITIVE 214 64 32 150 124 pint:PI0507|3end_transcriptional_regulator_466547..466697_POSITIVE 213 58 11 82 19 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 213 89 56 150 113 pint:PI0359|3end_hypothetical_protein_328835..328985_POSITIVE