Origin IGS: cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta .........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 taggttgtcggcattgaatgtctaacctttcaaaacgagcagaacaggctctgtcagttaggtttcagcaagatgtcagatacttgtcagctatgtttttctgtactttctgcccttgaaactaactttgtcggataaacaataaccgcccatttgcaaagccacgatatggcagcagaagaggcgaaaccaaatttattcaatgacg Mask Tandem Repeat Region ================================================ cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Find is-nt database================================================ Query_seq: PI0156:PI0158|PI0156:PI0158:conserved hypothetical protein:hypothetical protein:->->:150974..151181 208 cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0156:PI0158|PI0156:PI0158:conserved hypothetical protein:hypothetical protein:->->:150974..151181 208 cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0156:PI0158|PI0156:PI0158:conserved hypothetical protein:hypothetical protein:->->:150974..151181 208 cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 14 End: 115 ............. M W F R L F C C H I V A L Q M G G Y C L S D K V S F K G R K Y R K T ............................................................................................. Protein_Len: 38 Strand: + Start: 6 End: 119 ..... M N K F G F A S S A A I S W L C K W A V I V Y P T K L V S R A E S T E K H S ......................................................................................... Protein_Len: 33 Strand: - Start: 93 End: 191 ............................................................................................ P C F T C F F M A S L Y R V D Q Q F R V S L A Q E A R K S L N S M ................. Protein_Len: 41 Strand: - Start: 74 End: 196 ......................................................................... G V F N T E L A S L V S F C L Q C T D S M K S F G L Q C L R N Q E N Q F T L C E M ............ cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta 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================================================ cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0156:PI0158|PI0156:PI0158:conserved hypothetical protein:hypothetical protein:->->:150974..151181 208 cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Intra-Species Hit: Count: 1 Min: 1 Max: 208 Len: 208 Subject: pint_PI0156_PI0158|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[150974,151181]|208 HSP 1 e-value: 1.0E-114 bit: 412.0 Len: 208 Query Start:1 Query End:208 Subject Strand: POSITIVE Subject Start: 1 Subject End: 208 cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta cgtcattgaataaatttggtttcgcctcttctgctgccatatcgtggctttgcaaatgggcggttattgtttatccgacaaagttagtttcaagggcagaaagtacagaaaaacatagctgacaagtatctgacatcttgctgaaacctaactgacagagcctgttctgctcgttttgaaaggttagacattcaatgccgacaaccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUCAUUGAAUAAAUUUGGUUUCGCCUCUUCUGCUGCCAUAUCGUGGCUUUGCAAAUGGGCGGUUAUUGUUUAUCCGACAAAGUUAGUUUCAAGGGCAGAAAGUACAGAAAAACAUAGCUGACAAGUAUCUGACAUCUUGCUGAAACCUAACUGACAGAGCCUGUUCUGCUCGUUUUGAAAGGUUAGACAUUCAAUGCCGACAACCUA ((.(((((((...........((((((.((.(((.(((((...)))))...))))).))))))....((((((.((..(((((((((((...(((.(((.(((..((((........(((....))).))))....))).)))...)))))))))).((((.......))))..))))...)).))))))))))))).))........ (-53.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUGUCGGCAUUGAAUGUCUAACCUUUCAAAACGAGCAGAACAGGCUCUGUCAGUUAGGUUUCAGCAAGAUGUCAGAUACUUGUCAGCUAUGUUUUUCUGUACUUUCUGCCCUUGAAACUAACUUUGUCGGAUAAACAAUAACCGCCCAUUUGCAAAGCCACGAUAUGGCAGCAGAAGAGGCGAAACCAAAUUUAUUCAAUGACG .((((((..(((((...)))))))))))........((((.......)))).(((((((((.((((((((..(.((((((.((..(....)...))...)))).)).)..)))...))))))))))......(((((((.......(((((.(((((...((((.....)))).))))).).))))........)))))))..)))). (-51.76) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 64 22 55 6 pint:PI2158|5end_glycosyl_transferase,_group_2_family_protein_2104392..2104622_POSITIVE 368 70 24 230 166 pint:PI0929|5end_copper_homeostasis_protein_860294..860524_POSITIVE 362 53 14 45 5 pint:PI0341|5end_conserved_hypothetical_protein_317038..317268_POSITIVE 358 62 23 140 107 pint:PI0213|5end_conserved_hypothetical_protein_207065..207295_POSITIVE 335 55 16 65 17 pint:PI0837|5end_conserved_hypothetical_protein_772308..772538_POSITIVE 335 200 152 101 49 pint:PI0424|5end_methylated-DNA--[protein]-cysteine_S-methyltransferase_388429..388659_POSITIVE 329 80 31 201 148 pint:PI0897|5end_ferredoxin,_4Fe-4S_828227..828457_POSITIVE 328 80 34 202 148 pint:PI0854|5end_MiaB-like_tRNA_modifying_enzyme_786513..786743_POSITIVE 320 80 33 164 126 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 319 70 23 222 168 pint:PI1127|5end_chloride_channel_protein_1052612..1052842_POSITIVE 318 70 24 215 145 pint:PI0052|5end_hypothetical_protein_52312..52542_POSITIVE 317 69 21 131 62 pint:PI1768|5end_conserved_hypothetical_protein_1695456..1695686_POSITIVE 317 58 18 111 65 pint:PI0141|5end_glutamine_amidotransferase_involved_in_pyridoxine_biosynthesis_132710..132940_POSITIVE 315 65 22 120 67 pint:PI0248|5end_protein_associated_with_conjugate_transformation/chromosome_partioning_246139..246369_POSITIVE 311 64 21 220 167 pint:PI1091|5end_transcriptional_regulator,_AsnC_family_1016180..1016410_POSITIVE 311 68 22 64 12 pint:PI0136|5end_surface_antigen_BspA_127105..127335_POSITIVE 310 65 32 188 147 pint:PI0047|5end_phosphomethylpyrimidine_kinase_45964..46194_POSITIVE 309 69 22 58 12 pint:PI1707|5end_GTP-binding_protein_1623795..1624025_POSITIVE 307 80 31 225 171 pint:PI0121|5end_outer_membrane_protein,_ompH_family_112625..112855_POSITIVE 305 62 24 110 71 pint:PI0304|5end_hypothetical_protein_288582..288812_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 63 21 83 26 pint:PI1466|3end_GTP-binding_protein,_possible_GTP1/OBG_family_1393133..1393283_POSITIVE 372 70 24 131 64 pint:PI0928|3end_hypothetical_protein_860272..860422_POSITIVE 350 67 24 138 93 pint:PI0513|3end_ion_transporter_472371..472521_POSITIVE 335 55 16 50 2 pint:PI0836|3end_conserved_hypothetical_protein_772373..772523_POSITIVE 323 70 23 112 62 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE 321 53 18 131 93 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 315 65 22 133 80 pint:PI0247|3end_conjugative_transposon_protein,_TraA_246232..246382_POSITIVE 313 170 130 112 74 pint:PI1065|3end_hypothetical_protein_983650..983800_POSITIVE 311 68 22 136 84 pint:PI0135|3end_internalin-related_protein_127257..127407_POSITIVE 310 66 21 101 40 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 310 66 21 131 70 pint:PI0331|3end_hypothetical_protein_312575..312725_POSITIVE 310 66 21 101 40 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 303 80 31 128 74 pint:PI1568|3end_OmpA_family_protein_1491043..1491193_POSITIVE 303 77 33 57 13 pint:PI1479|3end_xanthine_phosphoribosyltransferase_1402747..1402897_POSITIVE 301 169 126 47 6 pint:PI2060|3end_conserved_hypothetical_protein;_possible_metalloprotease_2018358..2018508_POSITIVE 295 38 1 147 111 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 293 70 21 101 38 pint:PI1548|3end_conserved_hypothetical_protein_1466886..1467036_POSITIVE 291 80 32 55 5 pint:PI1363|3end_hypothetical_protein_1281922..1282072_POSITIVE 290 69 30 62 32 pint:PI1896|3end_hypothetical_protein_1841188..1841338_POSITIVE 290 69 30 109 79 pint:PI1897|3end_conserved_hypothetical_protein_1841235..1841385_POSITIVE