Origin IGS: tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa .........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 tttctaagttttataaaagtgaatactattccgattatcccggacagaagcccggcacaaaaatacttgagcctcatgaggaaggtgtttccggaactttcctttgtctcttccctaagctcgctattggactttctggcttccttcagctggcgtttcagggtgctgatggtcttggaatatccggcacacaccagttccaggctgtcgcagctggcttca Mask Tandem Repeat Region ================================================ tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Find is-nt database================================================ Query_seq: PI1651:PI1652|PI1651:PI1652:hypothetical protein:hypothetical protein:->->:1564573..1564794 222 tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1651:PI1652|PI1651:PI1652:hypothetical protein:hypothetical protein:->->:1564573..1564794 222 tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1651:PI1652|PI1651:PI1652:hypothetical protein:hypothetical protein:->->:1564573..1564794 222 tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 20 End: 220 ................... M E L V C A G Y S K T I S T L K R Q L K E A R K S N S E L R E E T K E S S G N T F L M R L K Y F C A G L L S G I I G I V .. Protein_Len: 53 Strand: - Start: 2 End: 160 . F G A A V A Q F Q H T G S I G L G D A G Q F A L Q L F G S L G I A L K P F L C L F T G S V G E E H P E L M .............................................................. Protein_Len: 60 Strand: - Start: 1 End: 210 H A P Y E L V M L V R F R W S F S A L F D L L S S L S S V F S L E P F V K R M L S L Y K Q A P S R D P I I P I T N V K M ............ tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa 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================================================ tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1651:PI1652|PI1651:PI1652:hypothetical protein:hypothetical protein:->->:1564573..1564794 222 tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Intra-Species Hit: Count: 1 Min: 1 Max: 222 Len: 222 Subject: pint_PI1651_PI1652|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1564573,1564794]|222 HSP 1 e-value: 1.0E-123 bit: 440.0 Len: 222 Query Start:1 Query End:222 Subject Strand: POSITIVE Subject Start: 1 Subject End: 222 tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa tgaagccagctgcgacagcctggaactggtgtgtgccggatattccaagaccatcagcaccctgaaacgccagctgaaggaagccagaaagtccaatagcgagcttagggaagagacaaaggaaagttccggaaacaccttcctcatgaggctcaagtatttttgtgccgggcttctgtccgggataatcggaatagtattcacttttataaaacttagaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAGCCAGCUGCGACAGCCUGGAACUGGUGUGUGCCGGAUAUUCCAAGACCAUCAGCACCCUGAAACGCCAGCUGAAGGAAGCCAGAAAGUCCAAUAGCGAGCUUAGGGAAGAGACAAAGGAAAGUUCCGGAAACACCUUCCUCAUGAGGCUCAAGUAUUUUUGUGCCGGGCUUCUGUCCGGGAUAAUCGGAAUAGUAUUCACUUUUAUAAAACUUAGAAA .((((((.((((...))))..((((..(((((...(((((..((((..(.....)....((((((...((..((((..(((..........)))..))))..))))))))..........))))...)))))..)))))))))......(((.((((....)))).))).))))))..(((((.....)))))............................. (-66.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUAAGUUUUAUAAAAGUGAAUACUAUUCCGAUUAUCCCGGACAGAAGCCCGGCACAAAAAUACUUGAGCCUCAUGAGGAAGGUGUUUCCGGAACUUUCCUUUGUCUCUUCCCUAAGCUCGCUAUUGGACUUUCUGGCUUCCUUCAGCUGGCGUUUCAGGGUGCUGAUGGUCUUGGAAUAUCCGGCACACACCAGUUCCAGGCUGUCGCAGCUGGCUUCA ......((((((((....))))).)))..((((.......))))..((((((.(((.(((......))).)))......(((((((((..(((((...((((.(..((....((((..(((.(((...(((((....))..)))...))).))).....))))....))..)....))))..)))))...)))))..)))).(((((...))))))))))). (-65.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 45 4 65 14 pint:PI0136|5end_surface_antigen_BspA_127105..127335_POSITIVE 387 59 13 41 1 pint:PI1644|5end_hypothetical_protein_1560372..1560602_POSITIVE 355 42 7 73 43 pint:PI1319|5end_possible_OmpA_,_outer_membrane_protein-related_protein_1235655..1235885_POSITIVE 354 97 56 55 18 pint:PI1865|5end_chromate_transport_protein_1810935..1811165_POSITIVE 343 192 151 55 10 pint:PI0252|5end_conserved_hypothetical_protein_247761..247991_POSITIVE 338 59 12 218 168 pint:PI0956|5end_conserved_hypothetical_protein_886077..886307_POSITIVE 337 102 61 37 2 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 334 59 13 57 7 pint:PI0408|5end_hypothetical_protein_374154..374384_POSITIVE 331 59 13 41 1 pint:PI0349|5end_hypothetical_protein_323144..323374_POSITIVE 330 47 4 133 70 pint:PI0304|5end_hypothetical_protein_288582..288812_POSITIVE 326 37 2 87 49 pint:PI1032|5end_methylmalonyl-CoA_decarboxylase,_alpha_subunit_948463..948693_POSITIVE 319 107 61 72 10 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 319 50 5 211 160 pint:PI0889|5end_pyruvate_kinase_818758..818988_POSITIVE 319 39 5 153 117 pint:PI0539|5end_hypothetical_protein_493406..493636_POSITIVE 316 86 45 151 98 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 314 40 4 200 161 pint:PI1365|5end_conserved_hypothetical_protein;_probable_transmembrane_protein_1283976..1284206_POSITIVE 314 59 12 162 120 pint:PI1166|5end_hypothetical_protein_1089305..1089535_POSITIVE 314 196 155 178 133 pint:PI0393|5end_conserved_hypothetical_protein_358696..358926_POSITIVE 313 40 4 122 80 pint:PI0834|5end_conserved_hypothetical_protein_770785..771015_POSITIVE 312 49 5 175 130 pint:PI0854|5end_MiaB-like_tRNA_modifying_enzyme_786513..786743_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 45 4 137 86 pint:PI0135|3end_internalin-related_protein_127257..127407_POSITIVE 354 97 56 49 12 pint:PI1864|3end_chromate_transport_protein_1811009..1811159_POSITIVE 344 58 11 148 84 pint:PI0115|3end_hypothetical_protein_108669..108819_POSITIVE 338 59 12 145 95 pint:PI0955|3end_conserved_hypothetical_protein_886084..886234_POSITIVE 334 42 7 66 30 pint:PI1380|3end_conserved_hypothetical_protein_1303242..1303392_POSITIVE 333 50 2 102 43 pint:PI0183|3end_hypothetical_protein_174810..174960_POSITIVE 327 104 64 93 44 pint:PI2167|3end_hypothetical_protein_2111891..2112041_POSITIVE 326 37 2 51 13 pint:PI1031|3end_hypothetical_protein_948507..948657_POSITIVE 314 40 4 137 98 pint:PI1364|3end_dipeptidyl_peptidase_IV_1283993..1284143_POSITIVE 314 50 4 105 57 pint:PI0718|3end_hypothetical_protein_654212..654362_POSITIVE 314 196 155 137 92 pint:PI0392|3end_possible_transcriptional_regulator_358735..358885_POSITIVE 308 69 28 148 108 pint:PI1949|3end_aminotransferase,_class_V_1904530..1904680_POSITIVE 306 58 11 119 67 pint:PI0906|3end_hypothetical_protein_836008..836158_POSITIVE 303 184 147 44 2 pint:PI1980|3end_conserved_hypothetical_protein_1937945..1938095_POSITIVE 297 79 31 151 100 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 296 110 62 64 24 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 296 49 1 121 49 pint:PI0026|3end_two-component_system_response_regulator_30537..30687_POSITIVE 292 39 2 47 11 pint:PI0853|3end_glycosyl_transferase,_group_2_family_protein_786593..786743_POSITIVE 289 137 109 123 93 pint:PI2081|3end_conserved_hypothetical_protein;_possible_integrase_2039656..2039806_POSITIVE 289 88 43 79 21 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE