Origin IGS: taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac .........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 gttggggcggcctacgattgctactaaatttgccatttattgatggtctttcccacgctgagaaacatctcaaggggtcaaggtgaggtctgcaccttatgaatatttgccgaagatgaccacgtctccagccctcgcactgtgcgagagttcgccctacatacagtcagggcgttgcttgttgtttcgtttggcttccttcctta Mask Tandem Repeat Region ================================================ taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Find is-nt database================================================ Query_seq: PI1706:PI1707|PI1706:PI1707:GTP-binding protein:GTP-binding protein:->->:1623729..1623934 206 taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1706:PI1707|PI1706:PI1707:GTP-binding protein:GTP-binding protein:->->:1623729..1623934 206 taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1706:PI1707|PI1706:PI1707:GTP-binding protein:GTP-binding protein:->->:1623729..1623934 206 taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 37 End: 126 .................................... M T V C R A N S R T V R G L E T W S S S A N I H K V Q T S P ................................................................................ Protein_Len: 55 Strand: + Start: 41 End: 205 ........................................ M Y V G R T L A Q C E G W R R G H L R Q I F I R C R P H L D P L R C F S A W E R P S I N G K F S S N R R P P Q . Protein_Len: 34 Strand: - Start: 3 End: 104 .. P L F G F S V V L L A R V T H L A F E R V T R P S S V H D D E A F M ...................................................................................................... Protein_Len: 41 Strand: - Start: 2 End: 124 . L F S A L R F L L C R G S Q I Y P S S E C L A L A P S T T M K P L Y E Y P A S R M .................................................................................. taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac 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================================================ taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1706:PI1707|PI1706:PI1707:GTP-binding protein:GTP-binding protein:->->:1623729..1623934 206 taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Intra-Species Hit: Count: 1 Min: 1 Max: 206 Len: 206 Subject: pint_PI1706_PI1707|GTP-binding protein:GTP-binding protein|POSITIVE:POSITIVE|[1623729,1623934]|206 HSP 1 e-value: 1.0E-113 bit: 408.0 Len: 206 Query Start:1 Query End:206 Subject Strand: POSITIVE Subject Start: 1 Subject End: 206 taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac taaggaaggaagccaaacgaaacaacaagcaacgccctgactgtatgtagggcgaactctcgcacagtgcgagggctggagacgtggtcatcttcggcaaatattcataaggtgcagacctcaccttgaccccttgagatgtttctcagcgtgggaaagaccatcaataaatggcaaatttagtagcaatcgtaggccgccccaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGAAGGAAGCCAAACGAAACAACAAGCAACGCCCUGACUGUAUGUAGGGCGAACUCUCGCACAGUGCGAGGGCUGGAGACGUGGUCAUCUUCGGCAAAUAUUCAUAAGGUGCAGACCUCACCUUGACCCCUUGAGAUGUUUCUCAGCGUGGGAAAGACCAUCAAUAAAUGGCAAAUUUAGUAGCAAUCGUAGGCCGCCCCAAC ...((..((..(((..((((............(((((((.(.....))))))))....(((((.....))))).((((.....((((((..................(((((((.......))))))).((((((((((....)))))).).)))...))))))...(((((.....))))).))))..)))).)))..))))... (-61.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUGGGGCGGCCUACGAUUGCUACUAAAUUUGCCAUUUAUUGAUGGUCUUUCCCACGCUGAGAAACAUCUCAAGGGGUCAAGGUGAGGUCUGCACCUUAUGAAUAUUUGCCGAAGAUGACCACGUCUCCAGCCCUCGCACUGUGCGAGAGUUCGCCCUACAUACAGUCAGGGCGUUGCUUGUUGUUUCGUUUGGCUUCCUUCCUUA (..((((.((((.((((..((.((.......((((((....))))))....(((.(..(((((....))))).))))..((((((.......))))))..........((.(.(((((....))))).).)).(((((.....))))).((.((((((((.....)).))))))..))..)).)).))))..))))))))..)... (-60.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 417 78 33 179 121 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 414 100 55 152 105 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 409 100 51 214 165 pint:PI0261|5end_conjugative_transposon_protein,_TraK_254065..254295_POSITIVE 396 96 54 90 21 pint:PI1145|5end_50S_ribosomal_protein_L35_1072520..1072750_POSITIVE 394 99 51 77 7 pint:PI1516|5end_multidrug_resistance_protein;_HlyD_family_secretion_protein_1434381..1434611_POSITIVE 384 87 45 121 66 pint:PI1578|5end_rod_shape-determining_protein_1504188..1504418_POSITIVE 375 89 47 138 88 pint:PI0546|5end_hypothetical_protein_497799..498029_POSITIVE 373 90 47 224 178 pint:PI2033|5end_hypothetical_protein_1987068..1987298_POSITIVE 370 89 42 116 47 pint:PI1650|5end_N-acetylmuramoyl-L-alanine_amidase_1563195..1563425_POSITIVE 363 79 32 188 148 pint:PI1607|5end_ABC-related_lipoprotein_releasing_system,_ATP-binding_protein_1535125..1535355_POSITIVE 363 79 32 162 122 pint:PI1606|5end_conserved_hypothetical_protein_1535099..1535329_POSITIVE 362 90 44 202 158 pint:PI1528|5end_hypothetical_protein_1449685..1449915_POSITIVE 360 97 51 189 140 pint:PI0248|5end_protein_associated_with_conjugate_transformation/chromosome_partioning_246139..246369_POSITIVE 355 98 61 148 105 pint:PI1638|5end_conserved_hypothetical_protein_1555337..1555567_POSITIVE 349 106 61 81 24 pint:PI0606|5end_naphthoate_synthase_552956..553186_POSITIVE 349 97 51 66 11 pint:PI0577|5end_conserved_hypothetical_protein_521811..522041_POSITIVE 348 98 51 64 17 pint:PI2072|5end_possible_ISmav2-related_transposase_2030737..2030967_POSITIVE 348 78 34 158 118 pint:PI1577|5end_conserved_hypothetical_protein_1503602..1503832_POSITIVE 345 78 31 117 75 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 344 99 51 61 2 pint:PI0537|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_489756..489986_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 89 47 126 76 pint:PI0545|3end_sugar_kinase_497867..498017_POSITIVE 364 98 51 66 17 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 351 96 52 115 67 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 349 106 61 71 14 pint:PI0605|3end_chloromuconate_cycloisomerase_553026..553176_POSITIVE 348 87 41 115 64 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE 344 87 46 144 98 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 341 90 41 66 6 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 334 97 61 73 23 pint:PI0324|3end_conserved_hypothetical_protein_305680..305830_POSITIVE 334 80 32 107 49 pint:PI0097|3end_aspartate_aminotransferase_94682..94832_POSITIVE 333 97 51 145 96 pint:PI1715|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1632324..1632474_POSITIVE 333 90 45 48 3 pint:PI0043|3end_thiamine_phosphate_pyrophosphorylase_43156..43306_POSITIVE 322 98 52 116 49 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 322 98 51 127 71 pint:PI0005|3end_hypothetical_protein_7450..7600_POSITIVE 321 98 51 129 80 pint:PI0091|3end_hypothetical_protein_89774..89924_POSITIVE 320 98 51 51 14 pint:PI1649|3end_hypothetical_protein_1563441..1563591_POSITIVE 320 98 52 65 23 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 319 98 57 62 16 pint:PI1706|3end_GTP-binding_protein_1623668..1623818_POSITIVE 317 99 52 147 93 pint:PI0653|3end_hypothetical_protein_596236..596386_POSITIVE 317 99 51 108 59 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 315 90 43 120 66 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE