Origin IGS: tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgttataacggcatcgcagtctattggcagcaggagggtttaaaggtaaaacttcctatccgtcctgctcagtttgtccctttcagaaccgttttatggaggaacgacagcta Mask Tandem Repeat Region ================================================ tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Find is-nt database================================================ Query_seq: PI1786:PI1787|PI1786:PI1787:hypothetical protein:conserved hypothetical protein:->->:1718441..1718553 113 tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1786:PI1787|PI1786:PI1787:hypothetical protein:conserved hypothetical protein:->->:1718441..1718553 113 tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1786:PI1787|PI1786:PI1787:hypothetical protein:conserved hypothetical protein:->->:1718441..1718553 113 tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 3 End: 101 .. S D N R W L V T R F P V F Q A P R I P L K V K L G E Q Q W Y V A M ............ Protein_Len: 30 Strand: - Start: 1 End: 90 L Q R E E M F R N Q F P C V S C S P Y S T K G K F G G A A M ....................... tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca 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================================================ tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1786:PI1787|PI1786:PI1787:hypothetical protein:conserved hypothetical protein:->->:1718441..1718553 113 tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: pint_PI1786_PI1787|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1718441,1718553]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca tagctgtcgttcctccataaaacggttctgaaagggacaaactgagcaggacggataggaagttttacctttaaaccctcctgctgccaatagactgcgatgccgttataaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCUGUCGUUCCUCCAUAAAACGGUUCUGAAAGGGACAAACUGAGCAGGACGGAUAGGAAGUUUUACCUUUAAACCCUCCUGCUGCCAAUAGACUGCGAUGCCGUUAUAACA ..((.(((................(((((....)))))......(((((((.((....((((......))))...)).))))))).......))).))............... (-28.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUAUAACGGCAUCGCAGUCUAUUGGCAGCAGGAGGGUUUAAAGGUAAAACUUCCUAUCCGUCCUGCUCAGUUUGUCCCUUUCAGAACCGUUUUAUGGAGGAACGACAGCUA .........(((......(((....))).((((((.((.....(((........)))..)).))))))...((((.(((..................))).))))....))). (-27.67) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 84 42 62 24 pint:PI0262|5end_conserved_hypothetical_protein_254685..254915_POSITIVE 328 109 66 65 16 pint:PI0740|5end_hypothetical_protein_672112..672342_POSITIVE 316 65 21 102 56 pint:PI1146|5end_translation_initiation_factor_IF3_1072830..1073060_POSITIVE 313 50 2 106 55 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 291 108 62 79 35 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 288 108 76 35 2 pint:PI1985|5end_hypothetical_protein_1940291..1940521_POSITIVE 287 59 11 169 121 pint:PI0248|5end_protein_associated_with_conjugate_transformation/chromosome_partioning_246139..246369_POSITIVE 285 110 62 96 31 pint:PI0207|5end_conserved_hypothetical_protein_199797..200027_POSITIVE 282 75 31 135 93 pint:PI1894|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino_pimelate_ligase_1836947..1837177_POSITIVE 280 95 51 200 157 pint:PI0790|5end_hypothetical_protein_728953..729183_POSITIVE 279 86 46 163 107 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 277 99 64 73 24 pint:PI1479|5end_xanthine_phosphoribosyltransferase_1402098..1402328_POSITIVE 277 65 22 215 176 pint:PI0201|5end_hypothetical_protein_195070..195300_POSITIVE 276 105 76 44 11 pint:PI2158|5end_glycosyl_transferase,_group_2_family_protein_2104392..2104622_POSITIVE 276 65 21 206 147 pint:PI2114|5end_conserved_hypothetical_protein_2063735..2063965_POSITIVE 275 90 42 192 131 pint:PI0537|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_489756..489986_POSITIVE 275 107 68 210 172 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 275 107 68 43 5 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 274 61 24 157 106 pint:PI1473|5end_hypothetical_protein_1395529..1395759_POSITIVE 272 104 62 121 74 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 84 42 62 24 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 311 64 24 150 108 pint:PI1833|3end_bacterioferritin_comigratory_protein_1774495..1774645_POSITIVE 293 87 46 136 99 pint:PI0171|3end_hypothetical_protein_164085..164235_POSITIVE 293 87 46 87 50 pint:PI0169|3end_hypothetical_protein_164036..164186_POSITIVE 291 108 62 70 26 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 287 88 42 122 75 pint:PI0242|3end_hypothetical_protein_240227..240377_POSITIVE 285 110 62 75 10 pint:PI0206|3end_TPR-repeat-containing_protein_199856..200006_POSITIVE 283 88 43 89 34 pint:PI0410|3end_glutamyl-tRNA_synthetase_(glutamate--tRNA_ligase)_377490..377640_POSITIVE 282 75 31 80 38 pint:PI1893|3end_phospho-N-acetylmuramoyl-pentapeptide-transferase__1836972..1837122_POSITIVE 281 67 21 60 20 pint:PI1493|3end_conserved_hypothetical_protein_1412818..1412968_POSITIVE 280 68 35 65 25 pint:PI0953|3end_hypothetical_protein_885390..885540_POSITIVE 280 68 35 123 83 pint:PI0951|3end_hypothetical_protein_885448..885598_POSITIVE 276 65 21 132 73 pint:PI2112|3end_phosphopantetheine_adenylyltransferase_2063741..2063891_POSITIVE 275 109 80 34 1 pint:PI0739|3end_conserved_hypothetical_protein_672161..672311_POSITIVE 275 90 42 135 74 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 270 89 43 121 64 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 267 109 79 79 55 pint:PI0634|3end_conserved_hypothetical_protein_581121..581271_POSITIVE 266 98 51 64 16 pint:PI0335|3end_hypothetical_protein_314420..314570_POSITIVE 266 107 73 71 24 pint:PI0327|3end_hypothetical_protein_309107..309257_POSITIVE 264 79 33 82 41 pint:PI2077|3end_hypothetical_protein_2036070..2036220_POSITIVE