Origin IGS: tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta .........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 taggtctagagagtttatgagccgtacggggcacgatgctgccccgcacggctttttcctttattgccgtcctccgtgccacttgacttccaactaagggcacagccccatacacagcgcatcggcatttgatgtcccctgcagaataccggaggcagcaaataaggctatgagtatgttttcaaaaatatctacggtttcattttaaaatacgacaagcca Mask Tandem Repeat Region ================================================ tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Find is-nt database================================================ Query_seq: PI1979:PI1980|PI1979:PI1980:conserved hypothetical protein:conserved hypothetical protein:->->:1937388..1937609 222 tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1979:PI1980|PI1979:PI1980:conserved hypothetical protein:conserved hypothetical protein:->->:1937388..1937609 222 tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1979:PI1980|PI1979:PI1980:conserved hypothetical protein:conserved hypothetical protein:->->:1937388..1937609 222 tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 34 End: 126 ................................. M F E N I L I A L F A A S G I L Q G T S N A D A L C M G L C P ................................................................................................ Protein_Len: 48 Strand: + Start: 62 End: 205 ............................................................. M L P P V F C R G H Q M P M R C V W G C A L S W K S S G T E D G N K G K S R A G Q H R A P Y G S ................. Protein_Len: 54 Strand: + Start: 60 End: 221 ........................................................... M C C L R Y S A G D I K C R C A V Y G A V P L V G S Q V A R R T A I K E K A V R G S I V P R T A H K L S R P . Protein_Len: 32 Strand: - Start: 18 End: 113 ................. F S V T S I K S F M S M A K N A A E P I R C P V D F A S A S H M ............................................................................................................. tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta 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================================================ tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1979:PI1980|PI1979:PI1980:conserved hypothetical protein:conserved hypothetical protein:->->:1937388..1937609 222 tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Intra-Species Hit: Count: 1 Min: 1 Max: 222 Len: 222 Subject: pint_PI1979_PI1980|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1937388,1937609]|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 tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta tggcttgtcgtattttaaaatgaaaccgtagatatttttgaaaacatactcatagccttatttgctgcctccggtattctgcaggggacatcaaatgccgatgcgctgtgtatggggctgtgcccttagttggaagtcaagtggcacggaggacggcaataaaggaaaaagccgtgcggggcagcatcgtgccccgtacggctcataaactctctagaccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGCUUGUCGUAUUUUAAAAUGAAACCGUAGAUAUUUUUGAAAACAUACUCAUAGCCUUAUUUGCUGCCUCCGGUAUUCUGCAGGGGACAUCAAAUGCCGAUGCGCUGUGUAUGGGGCUGUGCCCUUAGUUGGAAGUCAAGUGGCACGGAGGACGGCAAUAAAGGAAAAAGCCGUGCGGGGCAGCAUCGUGCCCCGUACGGCUCAUAAACUCUCUAGACCUA .((.(((((((.((((((((...............)))))))).....(((..((((((((.(((.(((..(((((((.((..(....)..)))))))))..).)).))).))))))))((((((((..(.....)..))).))))).))).)))))))..........((((((((((((((......))))))))))))))...............)).. (-76.36) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUCUAGAGAGUUUAUGAGCCGUACGGGGCACGAUGCUGCCCCGCACGGCUUUUUCCUUUAUUGCCGUCCUCCGUGCCACUUGACUUCCAACUAAGGGCACAGCCCCAUACACAGCGCAUCGGCAUUUGAUGUCCCCUGCAGAAUACCGGAGGCAGCAAAUAAGGCUAUGAGUAUGUUUUCAAAAAUAUCUACGGUUUCAUUUUAAAAUACGACAAGCCA ......(((((.(.....(((((((.(((((((......))))))).)))))))...))))))((((.(.((((((((((.((((.........)))))))))...........(((.((((((.....))))))...))).........)))))).))))....((((....((((..............(....)............))))....)))). (-65.27) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 439 155 111 229 184 pint:PI0281|5end_conserved_hypothetical_protein_266309..266539_POSITIVE 433 197 155 43 4 pint:PI2018|5end_50S_ribosomal_protein_L34_1975757..1975987_POSITIVE 426 158 111 226 165 pint:PI1419|5end_conserved_hypothetical_protein;_membrane_protease_subunits,_stomatin/prohibitin_homologs_1339136..1339366_POSITIVE 424 109 65 84 37 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 399 110 61 177 119 pint:PI1223|5end_conserved_hypothetical_protein_1143537..1143767_POSITIVE 390 150 101 67 10 pint:PI0814|5end_conserved_hypothetical_protein_752946..753176_POSITIVE 389 211 171 184 139 pint:PI0080|5end_hypothetical_protein_79047..79277_POSITIVE 377 214 172 52 4 pint:PI0097|5end_aspartate_aminotransferase_93235..93465_POSITIVE 376 139 96 217 178 pint:PI1778|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1710009..1710239_POSITIVE 375 120 72 147 101 pint:PI0539|5end_hypothetical_protein_493406..493636_POSITIVE 374 107 62 212 164 pint:PI0262|5end_conserved_hypothetical_protein_254685..254915_POSITIVE 373 189 144 53 1 pint:PI0736|5end_transcriptional_regulator,_TetR_family_670580..670810_POSITIVE 368 106 62 186 133 pint:PI2115|5end_hypothetical_protein_2064966..2065196_POSITIVE 367 190 142 199 139 pint:PI0721|5end_hypothetical_protein_654615..654845_POSITIVE 366 217 171 79 24 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 366 183 141 74 25 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 365 189 141 226 173 pint:PI1303|5end_ISPg3-related_transposase_1215135..1215365_POSITIVE 364 157 111 101 51 pint:PI0982|5end_hypothetical_protein_909432..909662_POSITIVE 360 86 49 56 18 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 358 158 113 229 190 pint:PI1484|5end_conserved_hypothetical_protein_1404619..1404849_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 438 198 170 143 105 pint:PI0588|3end_hypothetical_protein_535425..535575_POSITIVE 438 198 170 65 27 pint:PI0587|3end_conserved_hypothetical_protein_535347..535497_POSITIVE 372 125 81 96 53 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 366 183 141 83 34 pint:PI0300|3end_transposase_285761..285911_POSITIVE 362 120 77 55 2 pint:PI1475|3end_possible_short_chain_dehydrogenase_1397905..1398055_POSITIVE 348 119 71 87 32 pint:PI1466|3end_GTP-binding_protein,_possible_GTP1/OBG_family_1393133..1393283_POSITIVE 346 190 141 92 53 pint:PI0732|3end_conserved_hypothetical_protein_664367..664517_POSITIVE 346 211 172 73 32 pint:PI0706|3end_pyridoxal_phosphate_biosynthetic_protein_(4-hydroxythreonine-4-phosphate_dehydrogenase)_643394..643544_POSITIVE 345 149 105 64 16 pint:PI0411|3end_conserved_hypothetial_protein;_possible_hydrolase_379828..379978_POSITIVE 344 129 81 111 79 pint:PI2074|3end_conserved_hypothetical_protein_2034375..2034525_POSITIVE 344 150 102 132 64 pint:PI1437|3end_hypothetical_protein_1356407..1356557_POSITIVE 343 110 61 126 68 pint:PI0955|3end_conserved_hypothetical_protein_886084..886234_POSITIVE 340 156 112 65 15 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 339 158 111 151 103 pint:PI0595|3end_conserved_hypothetical_protein_546406..546556_POSITIVE 336 120 72 139 70 pint:PI1302|3end_hypothetical_protein_1215167..1215317_POSITIVE 333 203 163 38 1 pint:PI0906|3end_hypothetical_protein_836008..836158_POSITIVE 333 186 144 89 41 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 332 188 141 136 63 pint:PI0324|3end_conserved_hypothetical_protein_305680..305830_POSITIVE 330 118 72 111 64 pint:PI1471|3end_conserved_hypothetical_protein_1395636..1395786_POSITIVE 330 110 62 93 17 pint:PI0999|3end_hypothetical_protein_922812..922962_POSITIVE