Origin IGS: caaggttggtatagacagcctatcggcatcgtcgtactccttataaccattcattgtaaaattcacaatagccaaaaacgtataagtatcaacattctggctatcgcaaacctcccgaacagttttatcgccgaagcccaaattaattccaaaaccgcccagagcctgtagtaggtcgtaattatcgctgataagagaaatcatcttatcatcagcctcatacatcttatgatttttcatttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattgtttggtattttaaaatacctacttattgctattgcacagctcgtaaaaatgttattattttgcatagatattgcaacaggggaaaacgaaagcatactttcatattcacccaagtgcaatttatcttatacaaagatatttaaaatgcgacctaaatgaaaaatcataagatgtatgaggctgatgataagatgatttctcttatcagcgataattacgacctactacaggctctgggcggttttggaattaatttgggcttcggcgataaaactgttcgggaggtttgcgatagccagaatgttgatacttatacgtttttggctattgtgaattttacaatgaatggttataaggagtacgacgatgccgataggctgtctataccaaccttg Mask Tandem Repeat Region ================================================ caaggttggtatagacagcctatcggcatcgtcgtactccttataaccattcattgtaaaattcacaatagccaaaaacgtataagtatcaacattctggctatcgcaaacctcccgaacagttttatcgccgaagcccaaattaattccaaaaccgcccagagcctgtagtaggtcgtaattatcgctgataagagaaatcatcttatcatcagcctcatacatcttatgatttttcatttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Find is-nt database================================================ Query_seq: PI1389:PI1390|PI1389:PI1390:transcriptional regulator, LuxR family:hypothetical protein:->->:1310893..1311293 401 caaggttggtatagacagcctatcggcatcgtcgtactccttataaccattcattgtaaaattcacaatagccaaaaacgtataagtatcaacattctggctatcgcaaacctcccgaacagttttatcgccgaagcccaaattaattccaaaaccgcccagagcctgtagtaggtcgtaattatcgctgataagagaaatcatcttatcatcagcctcatacatcttatgatttttcatttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1389:PI1390|PI1389:PI1390:transcriptional regulator, LuxR family:hypothetical protein:->->:1310893..1311293 401 caaggttggtatagacagcctatcggcatcgtcgtactccttataaccattcattgtaaaattcacaatagccaaaaacgtataagtatcaacattctggctatcgcaaacctcccgaacagttttatcgccgaagcccaaattaattccaaaaccgcccagagcctgtagtaggtcgtaattatcgctgataagagaaatcatcttatcatcagcctcatacatcttatgatttttcatttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1389:PI1390|PI1389:PI1390:transcriptional regulator, LuxR family:hypothetical protein:->->:1310893..1311293 401 caaggttggtatagacagcctatcggcatcgtcgtactccttataaccattcattgtaaaattcacaatagccaaaaacgtataagtatcaacattctggctatcgcaaacctcccgaacagttttatcgccgaagcccaaattaattccaaaaccgcccagagcctgtagtaggtcgtaattatcgctgataagagaaatcatcttatcatcagcctcatacatcttatgatttttcatttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 3 Min: 1 Max: 240 Len: 240 Subject: UniRef90_Q8AAE6 Cluster: Hypothetical protein; n=1; Bacteroides thetaiotaomicron|Rep: Hypothetical protein - Bacteroides thetaiotaomicron HSP 1 e-value: 1.0E-16 bit: 87.8 Len: 240 Query Start:1 Query End:240 Subject Strand: null Subject Start: 1 Subject End: 81 M K N H K M Y E A D D K M I S L I S D N Y D L L Q A L G G F G I N L G F G D K T V R E V C D S Q N V D T Y T F L A I V N F T M N G Y K E Y D - D A D R L S I P T L ................................................................................................................................................................. M D N L Q K Y K P T D K M I D L I S D N Y S L L Q V M S R F G L S L G F G D K T V K E V C E L N G V D C R T F L I V V N F M S E G F S R M D G S S E D I S I P A L ................................................................................................................................................................. Subject: UniRef90_Q64SW4 Cluster: Hypothetical protein; n=2; Bacteroides fragilis|Rep: Hypothetical protein - Bacteroides fragilis HSP 1 e-value: 1.0E-16 bit: 87.8 Len: 240 Query Start:1 Query End:240 Subject Strand: null Subject Start: 1 Subject End: 81 M K N H K M Y E A D D K M I S L I S D N Y D L L Q A L G G F G I N L G F G D K T V R E V C D S Q N V D T Y T F L A I V N F T M N G Y K E Y D - D A D R L S I P T L ................................................................................................................................................................. M D K L Q K Y K P T D K M I D L I G D N Y S L L Q V M S R F G L S L G F G D K T V K E V C E M N K V D C Q T F L V V V N F M A E G F S R M D G S A D D I S I P A L ................................................................................................................................................................. Subject: UniRef90_Q7MV59 Cluster: Hypothetical protein; n=1; Porphyromonas gingivalis|Rep: Hypothetical protein - Porphyromonas gingivalis (Bacteroides gingivalis) HSP 1 e-value: 7.0E-10 bit: 65.1 Len: 180 Query Start:49 Query End:228 Subject Strand: null Subject Start: 8 Subject End: 67 ................................................ K M Y E A D D K M I S L I S D N Y D L L Q A L G G F G I N L G F G D K T V R E V C D S Q N V D T Y T F L A I V N F T M N ............................................................................................................................................................................. ................................................ K S Y S P N T K L S D L I C E N Y D L L L V I T R F G I S L G F G E K S I R E V C E D N K V N T N T L M A V I N A L I N ............................................................................................................................................................................. nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 22 End: 168 ..................... M G I V V L L I T I H C K I H N S Q K R I S I N I L A I A N L P N S F I A E A Q I N S K T A Q S L ......................................................................................................................................................................................................................................... Protein_Len: 36 Strand: + Start: 257 End: 364 ................................................................................................................................................................................................................................................................ M S L Y K I N C T W V N M K V C F R F P L L Q Y L C K I I T F L R A V Q ..................................... Protein_Len: 41 Strand: + Start: 277 End: 399 .................................................................................................................................................................................................................................................................................... M H L G E Y E S M L S F S P V A I S M Q N N N I F T S C A I A I S R Y F K I P N N .. Protein_Len: 48 Strand: - Start: 256 End: 399 ............................................................................................................................................................................................................................................................... I D K Y L I F Q V Q T F I F T H K R K G R N C Y R H L I I V N K R A T C Y C Y T P I K F Y W V M .. Protein_Len: 53 Strand: - Start: 240 End: 398 ............................................................................................................................................................................................................................................... K P R M K F I K T Y S L N C K P S Y S L I S E N E G T A I D I C F L L M K V L Q A I A I L L Y K L I G F M ... Protein_Len: 33 Strand: - Start: 230 End: 328 ..................................................................................................................................................................................................................................... S K E N L D C K L Y R Q I L Y I A S P H I H F Y A K T K G Q Q L M ......................................................................... Protein_Len: 40 Strand: - Start: 66 End: 185 ................................................................. L L W F R I L I L M R A I A F R G F L K I A S A W I L E L V A W L R Y Y T T I M ........................................................................................................................................................................................................................ Protein_Len: 60 Strand: - Start: 1 End: 240 N V I A L F T Y T D V N Q S D C V E R V T K D G F G L N I G F G G L A Q L L D Y N D S I L S I M K D D A E Y M K H N K M ................................................................................................................................................................. nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 40 End: 69 .......................................ATTGTGAATTTTACAATGAATGGTTATAAG............................................................................................................................................................................................................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 68 HP_score: -2.9 Tail_Score: -5.00138 Start: 218 End: 232 Full_Region: ATCTTATCATCAGCC TCATA CATCT TATGA TTTTTCATTTAGGTC .........................................................................................................................................................................................................................TCATACATCTTATGA......................................................................................................................................................................... Find igs database================================================ Query_seq: PI1389:PI1390|PI1389:PI1390:transcriptional regulator, LuxR family:hypothetical protein:->->:1310893..1311293 401 nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Intra-Species Hit: Count: 1 Min: 241 Max: 401 Len: 161 Subject: pint_PI1389_PI1390|transcriptional regulator, LuxR family:hypothetical protein|POSITIVE:POSITIVE|[1310893,1311293]|401 HSP 1 e-value: 4.0E-86 bit: 319.0 Len: 161 Query Start:241 Query End:401 Subject Strand: POSITIVE Subject Start: 241 Subject End: 401 ................................................................................................................................................................................................................................................ttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta ................................................................................................................................................................................................................................................ttaggtcgcattttaaatatctttgtataagataaattgcacttgggtgaatatgaaagtatgctttcgttttcccctgttgcaatatctatgcaaaataataacatttttacgagctgtgcaatagcaataagtaggtattttaaaataccaaacaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGGUCGCAUUUUAAAUAUCUUUGUAUAAGAUAAAUUGCACUUGGGUGAAUAUGAAAGUAUGCUUUCGUUUUCCCCUGUUGCAAUAUCUAUGCAAAAUAAUAACAUUUUUACGAGCUGUGCAAUAGCAAUAAGUAGGUAUUUUAAAAUACCAAACAAUUA ...(((...((((((((((((.(((((((.((((..(((((...(((.(((.(((((((....))))))).))))))...))))))))))))))))...................(((.(((....)))...))).)))).)))))))))))......... (-41.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGUUUGGUAUUUUAAAAUACCUACUUAUUGCUAUUGCACAGCUCGUAAAAAUGUUAUUAUUUUGCAUAGAUAUUGCAACAGGGGAAAACGAAAGCAUACUUUCAUAUUCACCCAAGUGCAAUUUAUCUUAUACAAAGAUAUUUAAAAUGCGACCUAA .....((..((((((....)))))).))...((((.(((((((......................(((((.......)))))..((((((...(((((....)))))...))).)))..))))))).((((((.....))))))........))))..... (-33.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 260 97 53 208 155 pint:PI1767|5end_fructokinase,_pfkB_family_1694285..1694515_POSITIVE 250 78 41 118 82 pint:PI1428|5end_quinolinate_synthetase_A_1346626..1346856_POSITIVE 247 90 45 165 128 pint:PI0566|5end_enoyl-[acyl-carrier-protein]_reductase_511832..512062_POSITIVE 245 92 51 136 98 pint:PI0594|5end_possible_rare_lipoprotein_A_544388..544618_POSITIVE 242 129 81 225 161 pint:PI0418|5end_hypothetical_protein_386666..386896_POSITIVE 242 129 81 110 46 pint:PI0420|5end_hypothetical_protein_386551..386781_POSITIVE 242 129 81 96 32 pint:PI0417|5end_hypothetical_protein_386537..386767_POSITIVE 241 78 38 90 43 pint:PI0049|5end_outer_membrane_receptor_protein_(iron_transport)_48605..48835_POSITIVE 239 89 43 44 6 pint:PI0874|5end_conserved_hypothetical_protein_808978..809208_POSITIVE 236 140 91 86 38 pint:PI1905|5end_hypothetical_protein_1847628..1847858_POSITIVE 236 79 31 61 17 pint:PI0262|5end_conserved_hypothetical_protein_254685..254915_POSITIVE 235 95 62 220 183 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 234 83 42 221 174 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 231 83 61 203 180 pint:PI0564|5end_hypothetical_protein_511537..511767_POSITIVE 231 83 61 145 122 pint:PI0565|5end_hypothetical_protein_511479..511709_POSITIVE 230 94 60 155 117 pint:PI0701|5end_hypothetical_protein_638356..638586_POSITIVE 229 90 44 201 154 pint:PI1768|5end_conserved_hypothetical_protein_1695456..1695686_POSITIVE 229 92 62 139 104 pint:PI1090|5end_tRNA_uracil_5-methyltransferase_1014366..1014596_POSITIVE 228 120 72 212 151 pint:PI0462|5end_50S_ribosomal_protein_L23_433707..433937_POSITIVE 227 80 39 152 108 pint:PI0553|5end_recombination_protein_503344..503574_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 319 46 6 59 17 pint:PI0787|3end_glycosyltransferase_725793..725943_POSITIVE 267 83 42 116 55 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 250 78 41 72 36 pint:PI1427|3end_nicotinate-nucleotide_pyrophosphorylase_1346660..1346810_POSITIVE 246 110 61 81 40 pint:PI0358|3end_hypothetical_protein_328105..328255_POSITIVE 236 79 31 61 17 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 235 95 62 150 113 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 230 94 60 132 94 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 227 94 52 93 55 pint:PI1141|3end_hypothetical_protein_1069713..1069863_POSITIVE 227 80 39 63 19 pint:PI0552|3end_hypothetical_protein_503335..503485_POSITIVE 225 76 31 150 106 pint:PI2152|3end_heptosyltransferase_2099296..2099446_POSITIVE 225 139 91 78 36 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 225 145 110 139 105 pint:PI0324|3end_conserved_hypothetical_protein_305680..305830_POSITIVE 221 160 118 118 74 pint:PI1600|3end_conserved_hypothetical_protein_1530275..1530425_POSITIVE 221 92 53 37 1 pint:PI0593|3end_NAD-specific_glutamate_dehydrogenase_544369..544519_POSITIVE 219 142 109 92 50 pint:PI2014|3end_conserved_hypothetical_protein_1972603..1972753_POSITIVE 218 90 43 118 74 pint:PI1179|3end_adenylosuccinate_synthetase_1101823..1101973_POSITIVE 217 80 36 151 97 pint:PI0970|3end_hypothetical_protein_897654..897804_POSITIVE 216 88 45 139 83 pint:PI0242|3end_hypothetical_protein_240227..240377_POSITIVE 215 94 58 105 60 pint:PI0410|3end_glutamyl-tRNA_synthetase_(glutamate--tRNA_ligase)_377490..377640_POSITIVE 214 140 114 130 106 pint:PI0830|3end_conserved_hypothetical_protein_768206..768356_POSITIVE