Origin IGS: tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 atacggattttagcccttaacttttatataacaaaaatgtttaccggacagcaataatattctattaattttattctgcacattcattattgcttagtaataaaccaaacatctatattccattctttcattaattttcttctatatatttattatctctcttaataaaccaagtaactgtattttcctctttcagcatttctattctacagaatcattattatctttttcgtaaatttgttagagttagtttttagtattctatatgtcaaataaaactaaaaggagggagcatttaacgttttattgtgatttagcagtacctttgcaactcatttaaaagttacgaaata Mask Tandem Repeat Region ================================================ tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Find is-nt database================================================ Query_seq: PI0149:PI0150|PI0149:PI0150:conserved hypothetical protein:hypothetical protein:->->:143298..143650 353 tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0149:PI0150|PI0149:PI0150:conserved hypothetical protein:hypothetical protein:->->:143298..143650 353 tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0149:PI0150|PI0149:PI0150:conserved hypothetical protein:hypothetical protein:->->:143298..143650 353 tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 192 End: 290 ............................................................................................................................................................................................... S L Y Y I Y L L F N I F S H F I S T Q N I V L C Y H I H L I F N M ............................................................... Protein_Len: 37 Strand: - Start: 122 End: 232 ......................................................................................................................... S F S L L S E T S Y F H Q F L F I C N S P K N L S I I F I Y F F I L S L M ......................................................................................................................... Protein_Len: 37 Strand: - Start: 100 End: 210 ................................................................................................... F S V R V F K R F L Y Y H N Q L I S I S F S S F V T V Q N I L L S L L Y M ............................................................................................................................................... Protein_Len: 32 Strand: - Start: 81 End: 176 ................................................................................ K V Y L I S F V L E L L N V F F I I I I R Y F L F A S L P F Y M ................................................................................................................................................................................. tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat 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================================================ tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0149:PI0150|PI0149:PI0150:conserved hypothetical protein:hypothetical protein:->->:143298..143650 353 tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Intra-Species Hit: Count: 1 Min: 1 Max: 353 Len: 353 Subject: pint_PI0149_PI0150|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[143298,143650]|353 HSP 1 e-value: 0.0 bit: 700.0 Len: 353 Query Start:1 Query End:353 Subject Strand: POSITIVE Subject Start: 1 Subject End: 353 tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat tatttcgtaacttttaaatgagttgcaaaggtactgctaaatcacaataaaacgttaaatgctccctccttttagttttatttgacatatagaatactaaaaactaactctaacaaatttacgaaaaagataataatgattctgtagaatagaaatgctgaaagaggaaaatacagttacttggtttattaagagagataataaatatatagaagaaaattaatgaaagaatggaatatagatgtttggtttattactaagcaataatgaatgtgcagaataaaattaatagaatattattgctgtccggtaaacatttttgttatataaaagttaagggctaaaatccgtat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUUCGUAACUUUUAAAUGAGUUGCAAAGGUACUGCUAAAUCACAAUAAAACGUUAAAUGCUCCCUCCUUUUAGUUUUAUUUGACAUAUAGAAUACUAAAAACUAACUCUAACAAAUUUACGAAAAAGAUAAUAAUGAUUCUGUAGAAUAGAAAUGCUGAAAGAGGAAAAUACAGUUACUUGGUUUAUUAAGAGAGAUAAUAAAUAUAUAGAAGAAAAUUAAUGAAAGAAUGGAAUAUAGAUGUUUGGUUUAUUACUAAGCAAUAAUGAAUGUGCAGAAUAAAAUUAAUAGAAUAUUAUUGCUGUCCGGUAAACAUUUUUGUUAUAUAAAAGUUAAGGGCUAAAAUCCGUAU ......(((((((......)))))))...((....(((.....((.......((((((......((((.((((((((((((((....((((((((.............(((((.....))).))..............)))))))))))))))...)))))))))))............((..((((((((.......))))))))....)).......)))))).(((((((.........((((((((.....))))))))........((..((((((((.(((.....))).))))).)))..)).....)))))))...........))....)))......)).... (-54.03) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUACGGAUUUUAGCCCUUAACUUUUAUAUAACAAAAAUGUUUACCGGACAGCAAUAAUAUUCUAUUAAUUUUAUUCUGCACAUUCAUUAUUGCUUAGUAAUAAACCAAACAUCUAUAUUCCAUUCUUUCAUUAAUUUUCUUCUAUAUAUUUAUUAUCUCUCUUAAUAAACCAAGUAACUGUAUUUUCCUCUUUCAGCAUUUCUAUUCUACAGAAUCAUUAUUAUCUUUUUCGUAAAUUUGUUAGAGUUAGUUUUUAGUAUUCUAUAUGUCAAAUAAAACUAAAAGGAGGGAGCAUUUAACGUUUUAUUGUGAUUUAGCAGUACCUUUGCAACUCAUUUAAAAGUUACGAAAUA ....((........)).(((((((((..((((((....((((((..((.((.(((((((((((.............(((.......(((((((...))))))).............................................(((((((.......)))))))..........................)))............))))).))))))..)).))..))))))))))))(((((.((.....((((((((...((((((((((((...(((..(....).)))...)))))))).)))).))).)))))....)))))))...)))))))))....... (-43.21) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 798 350 301 210 161 pint:PI1294|5end_hypothetical_protein_1208490..1208720_POSITIVE 798 350 301 174 125 pint:PI1182|5end_hypothetical_protein_1104025..1104255_POSITIVE 626 350 301 131 82 pint:PI1260|5end_IS1001-related_transposase_1182053..1182283_POSITIVE 263 42 10 159 127 pint:PI0307|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_290042..290272_POSITIVE 251 33 4 185 157 pint:PI1971|5end_possible_IS1249-related_transposase_1928027..1928257_POSITIVE 251 33 4 185 157 pint:PI1533|5end_conserved_hypothetical_protein;_possible_transposase_1452667..1452897_POSITIVE 251 33 4 185 157 pint:PI0534|5end_conserved_hypothetical_protein;_possible_transposase_488568..488798_POSITIVE 246 350 301 117 61 pint:PI0800|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_738868..739098_POSITIVE 237 311 271 231 193 pint:PI1086|5end_pyruvate:ferredoxin_oxidoreductase_1006602..1006832_POSITIVE 233 57 11 157 109 pint:PI1682|5end_aminoacyl-histidine_dipeptidase_1598303..1598533_POSITIVE 232 186 141 90 45 pint:PI0245|5end_possible_mobilization_protein_242946..243176_POSITIVE 230 198 153 82 41 pint:PI0525|5end_transcriptional_regulator,_Arac_family_481332..481562_POSITIVE 229 349 304 151 102 pint:PI0067|5end_hypothetical_protein_66273..66503_POSITIVE 226 56 18 63 27 pint:PI0382|5end_conserved_hypothetical_protein_351510..351740_POSITIVE 224 346 304 198 145 pint:PI1938|5end_hypothetical_protein_1891854..1892084_POSITIVE 219 169 122 77 31 pint:PI2028|5end_shikimate_kinase_1982162..1982392_POSITIVE 219 200 157 133 90 pint:PI1538|5end_conserved_hypothetical_protein_1459387..1459617_POSITIVE 219 182 156 192 169 pint:PI0424|5end_methylated-DNA--[protein]-cysteine_S-methyltransferase_388429..388659_POSITIVE 218 185 142 171 138 pint:PI1160|5end_possible_phosphatidylinositol-4-phosphate_5-kinase_1084756..1084986_POSITIVE 218 176 141 230 194 pint:PI0494|5end_hypothetical_protein_454863..455093_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 798 350 301 87 38 pint:PI1293|3end_ISPg4-related_transposase_(IS5_family)_1208447..1208597_POSITIVE 798 350 301 87 38 pint:PI1181|3end_ISPg4-related_transposase_(IS5_family)_1104018..1104168_POSITIVE 798 350 301 87 38 pint:PI1085|3end_ISPg4-related_transposase_(IS5_family)_1006499..1006649_POSITIVE 626 350 301 87 38 pint:PI1259|3end_ISPg4-related_transposase_(IS5_family)_1182089..1182239_POSITIVE 295 38 5 49 23 pint:PI0437|3end_conserved_hypothetical_protein;_possible_ribosomal_subunit_interface_protein_408543..408693_POSITIVE 236 70 22 151 98 pint:PI2093|3end_hypothetical_protein_2049440..2049590_POSITIVE 236 70 22 117 64 pint:PI2092|3end_hypothetical_protein_2049406..2049556_POSITIVE 220 279 232 151 116 pint:PI1323|3end_conserved_hypothetical_protein_1242483..1242633_POSITIVE 219 200 157 58 15 pint:PI1537|3end_predicted_TPR-repeat-containing_protein_1459392..1459542_POSITIVE 219 182 156 115 92 pint:PI0423|3end_hypothetical_protein_388432..388582_POSITIVE 218 185 142 92 59 pint:PI1159|3end_1,4-alpha-glucan_branching_enzyme,_N-terminal_region_1084757..1084907_POSITIVE 216 341 301 108 68 pint:PI1530|3end_conserved_hypothetical_protein_1450908..1451058_POSITIVE 212 189 144 121 68 pint:PI1950|3end_iron-regulated_membrane_permease_1905888..1906038_POSITIVE 212 196 156 146 106 pint:PI0310|3end_outer_membrane_protein_294310..294460_POSITIVE 207 70 22 112 75 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 207 37 5 52 24 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 203 200 155 142 100 pint:PI1148|3end_50S_ribosomal_protein_L9_1075467..1075617_POSITIVE 202 276 231 111 73 pint:PI0583|3end_hypothetical_protein_526276..526426_POSITIVE 201 268 228 107 59 pint:PI1469|3end_hypothetical_protein_1395344..1395494_POSITIVE 200 238 191 141 106 pint:PI1459|3end_ribonucleotide_reductase,_alpha_subunit,_C-terminal_region_1382308..1382458_POSITIVE