Origin IGS: taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg .........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 cagccgctttgccaatgcaaacccgatgcctcgcgatgctcctgtaatcaccacccagcgtcctttgaaacgatattgcagttgcttttcgtccatacggggcttgggatagagcagggaagcacatagtttcagcatacttttcttcattctttactccttattttccatttgcaaacatagcttttattctccatttgtacaagctttagcagtagattgtgtataaaaatgaaatgcaaatgtgcgtta Mask Tandem Repeat Region ================================================ taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Find is-nt database================================================ Query_seq: PI1474:PI1475|PI1474:PI1475:conserved hypothetical protein:possible short chain dehydrogenase:->->:1397030..1397281 252 taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1474:PI1475|PI1474:PI1475:conserved hypothetical protein:possible short chain dehydrogenase:->->:1397030..1397281 252 taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1474:PI1475|PI1474:PI1475:conserved hypothetical protein:possible short chain dehydrogenase:->->:1397030..1397281 252 taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 11 End: 103 .......... M H F I F I H N L L L K L V Q M E N K S Y V C K W K I R S K E ..................................................................................................................................................... Protein_Len: 42 Strand: + Start: 126 End: 251 ............................................................................................................................. M C F P A L S Q A P Y G R K A T A I S F Q R T L G G D Y R S I A R H R V C I G K A A . Protein_Len: 50 Strand: + Start: 103 End: 252 ...................................................................................................... M K K S M L K L C A S L L Y P K P R M D E K Q L Q Y R F K G R W V V I T G A S R G I G F A L A K R L Protein_Len: 45 Strand: - Start: 44 End: 178 ........................................... L K Y L H L I F A I N A F P F Y P T F F S S F Y A S V I H K G A R D W A G Y P R F A V A M .......................................................................... Protein_Len: 30 Strand: - Start: 27 End: 116 .......................... V C D V A L A Q V F P S Y F S H K C I S F L S Y L I F F L M ........................................................................................................................................ taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg 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================================================ taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1474:PI1475|PI1474:PI1475:conserved hypothetical protein:possible short chain dehydrogenase:->->:1397030..1397281 252 taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Intra-Species Hit: Count: 1 Min: 1 Max: 252 Len: 252 Subject: pint_PI1474_PI1475|conserved hypothetical protein:possible short chain dehydrogenase|POSITIVE:POSITIVE|[1397030,1397281]|252 HSP 1 e-value: 1.0E-140 bit: 500.0 Len: 252 Query Start:1 Query End:252 Subject Strand: POSITIVE Subject Start: 1 Subject End: 252 taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg taacgcacatttgcatttcatttttatacacaatctactgctaaagcttgtacaaatggagaataaaagctatgtttgcaaatggaaaataaggagtaaagaatgaagaaaagtatgctgaaactatgtgcttccctgctctatcccaagccccgtatggacgaaaagcaactgcaatatcgtttcaaaggacgctgggtggtgattacaggagcatcgcgaggcatcgggtttgcattggcaaagcggctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGCACAUUUGCAUUUCAUUUUUAUACACAAUCUACUGCUAAAGCUUGUACAAAUGGAGAAUAAAAGCUAUGUUUGCAAAUGGAAAAUAAGGAGUAAAGAAUGAAGAAAAGUAUGCUGAAACUAUGUGCUUCCCUGCUCUAUCCCAAGCCCCGUAUGGACGAAAAGCAACUGCAAUAUCGUUUCAAAGGACGCUGGGUGGUGAUUACAGGAGCAUCGCGAGGCAUCGGGUUUGCAUUGGCAAAGCGGCUG ....((...(((((.((((((((((.(((.(..((((.(((...(((((.................)))))......)))..)))).......).)))))))))))))......((((..(((((..((((((((.(((((((((((..(((((((.(((((((...((....))....))).))))....)))..)))))).)))....))))))..).)))))))..)))))))))..)))))...)).. (-59.43) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGCCGCUUUGCCAAUGCAAACCCGAUGCCUCGCGAUGCUCCUGUAAUCACCACCCAGCGUCCUUUGAAACGAUAUUGCAGUUGCUUUUCGUCCAUACGGGGCUUGGGAUAGAGCAGGGAAGCACAUAGUUUCAGCAUACUUUUCUUCAUUCUUUACUCCUUAUUUUCCAUUUGCAAACAUAGCUUUUAUUCUCCAUUUGUACAAGCUUUAGCAGUAGAUUGUGUAUAAAAAUGAAAUGCAAAUGUGCGUUA .(((((((((((..((((...(((((.((((((.((((((...((.......))..)))))).......((((....((....))...)))).....)))))))))))..........(((((.....))))).)))).......((((((.((((.....(((..((...((((......(((((.(((.........))).)))))...))))..))..)))..))))))))))..))))).))).))). (-56.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 250 207 205 153 pint:PI0937|5end_hypothetical_protein_869235..869465_POSITIVE 385 250 201 165 117 pint:PI1947|5end_hypothetical_protein_1902534..1902764_POSITIVE 377 240 192 93 48 pint:PI1994|5end_hypothetical_protein_1949360..1949590_POSITIVE 375 229 193 42 6 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 373 229 181 165 105 pint:PI1891|5end_hypothetical_protein_1835196..1835426_POSITIVE 358 249 207 199 156 pint:PI1791|5end_conserved_hypothetical_protein_1718489..1718719_POSITIVE 358 249 207 191 148 pint:PI1788|5end_hypothetical_protein_1718481..1718711_POSITIVE 358 249 207 124 81 pint:PI1787|5end_conserved_hypothetical_protein_1718414..1718644_POSITIVE 353 250 210 127 84 pint:PI1547|5end_hypothetical_protein_1465808..1466038_POSITIVE 351 248 201 228 175 pint:PI2046|5end_hypothetical_protein_1999030..1999260_POSITIVE 347 248 219 198 168 pint:PI1743|5end_stationary-phase_survival_protein_1663948..1664178_POSITIVE 346 248 201 91 38 pint:PI1204|5end_hypothetical_protein_1124430..1124660_POSITIVE 344 212 171 97 55 pint:PI0665|5end_dihydroorotate_dehydrogenase_607865..608095_POSITIVE 341 250 211 155 117 pint:PI1686|5end_hypothetical_protein_1601594..1601824_POSITIVE 339 242 201 199 135 pint:PI1310|5end_LysM_domain_protein_1227262..1227492_POSITIVE 338 230 181 54 3 pint:PI0958|5end_G:T/U_mismatch-specific_DNA_glycosylase_889911..890141_POSITIVE 338 229 181 66 19 pint:PI0151|5end_ISPg4-related_transposase_(IS5_family)_143805..144035_POSITIVE 336 248 213 50 16 pint:PI0861|5end_glucosamine--fructose-6-phosphate_aminotransferase_(glutamine-fructose-6-phosphate_transaminase_(isomerizing))_796346..796576_POSITIVE 336 250 210 169 100 pint:PI0222|5end_conserved_hypothetical_protein_217808..218038_POSITIVE 335 247 201 71 11 pint:PI0107|5end_2-methylthioadenine_synthetase_103280..103510_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 385 250 201 138 90 pint:PI1945|3end_ribonuclease_HII_1902587..1902737_POSITIVE 377 250 210 84 33 pint:PI1892|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_1835547..1835697_POSITIVE 375 229 193 118 82 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 372 250 201 62 7 pint:PI1741|3end_lipid-A-disaccharide_synthase_1663856..1664006_POSITIVE 364 249 202 81 16 pint:PI0324|3end_conserved_hypothetical_protein_305680..305830_POSITIVE 342 224 181 56 20 pint:PI1723|3end_conserved_hypothetical_protein_1642133..1642283_POSITIVE 342 250 210 98 53 pint:PI0592|3end_DNA_mismatch_repair_protein_542611..542761_POSITIVE 336 250 210 77 8 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 334 250 202 151 93 pint:PI0637|3end_hypothetical_protein_582397..582547_POSITIVE 330 156 125 123 90 pint:PI1633|3end_hypothetical_protein_1552955..1553105_POSITIVE 326 250 207 84 38 pint:PI0979|3end_transcriptional_regulator,_tetR_family_905678..905828_POSITIVE 324 237 194 129 79 pint:PI0768|3end_conserved_hypothetical_protein;_possible_acetyltransferase_704661..704811_POSITIVE 322 204 162 145 107 pint:PI0587|3end_conserved_hypothetical_protein_535347..535497_POSITIVE 317 240 197 103 51 pint:PI1890|3end_cell_division_protein_FtsW_1834072..1834222_POSITIVE 314 231 193 51 7 pint:PI0957|3end_conserved_hypothetical_protein_889987..890137_POSITIVE 311 248 214 128 93 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 310 249 214 39 1 pint:PI1753|3end_conserved_hypothetical_protein_1681282..1681432_POSITIVE 310 250 201 78 17 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 309 249 201 146 82 pint:PI0735|3end_ABC_transporter,_ATP-binding_/_permease_670591..670741_POSITIVE 309 249 201 151 101 pint:PI0075|3end_uridine_kinase_75390..75540_POSITIVE