Origin IGS: taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt .........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 acaagcgaaaatttcctaaaaatcctatctccattcgggcgtcttatacggggaccccgttttattctttctccgaattttcccctcttttgtaaagaggggggggagattaaaagtgcggttaaaaatcatttaaaatttgaccgcacttttgtttatcggttagttatgagtaaatacacgaaaagggcgtaataatacgccctttgttattatctaacaaatcaatta Mask Tandem Repeat Region ================================================ taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Find is-nt database================================================ Query_seq: AA00657:AA00658|AA00657:AA00658:heat shock protein 70:hypothetical protein:->->:451527..451757 231 taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00657:AA00658|AA00657:AA00658:heat shock protein 70:hypothetical protein:->->:451527..451757 231 taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00657:AA00658|AA00657:AA00658:heat shock protein 70:hypothetical protein:->->:451527..451757 231 taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 100 End: 204 ................................................................................................... M I F N R T F N L P P L F T K E G K I R R K N K T G S P Y K T P E W R ........................... Protein_Len: 36 Strand: + Start: 122 End: 229 ......................................................................................................................... M S P P S L Q K R G K F G E R I K R G P R I R R P N G D R I F R K F S L .. Protein_Len: 57 Strand: - Start: 40 End: 210 ....................................... A R K T Y K S M V L R Y V F T R D F K L H N K V A S K I E G G E K C F L P F N P S L I F R P G R I L R G F P S L M ..................... taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt 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: 82 Start: 8 End: 37 .......TTTGTTAGATAATAACAAAGGGCGTATTAT.................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 90 HP_score: -11.3 Tail_Score: -4.55093 Start: 27 End: 44 Full_Region: gtaaatacacgaaaa gggcgta ataa tacgccc tttgttattatctaa ..........................gggcgtaataatacgccc........................................................................................................................................................................................... TransTerm Strand: - Conf: 72 HP_score: -7.0 Tail_Score: -3.99898 Start: 78 End: 121 Full_Region: agaggggggggagat taaaagtgcggttaaa aatcatttaaaa tttgaccgcacttttg tttatcggttagtta .............................................................................taaaagtgcggttaaaaatcatttaaaatttgaccgcacttttg.............................................................................................................. TransTerm Strand: - Conf: 74 HP_score: -4.7 Tail_Score: -5.01553 Start: 83 End: 116 Full_Region: ggggggagattaaaa gtgcggttaaa aatcatttaaaa tttgaccgcac ttttgtttatcggtt ..................................................................................gtgcggttaaaaatcatttaaaatttgaccgcac................................................................................................................... Find igs database================================================ Query_seq: AA00657:AA00658|AA00657:AA00658:heat shock protein 70:hypothetical protein:->->:451527..451757 231 taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Intra-Species Hit: Count: 1 Min: 1 Max: 231 Len: 231 Subject: aact_AA00657_AA00658|heat shock protein 70:hypothetical protein|POSITIVE:POSITIVE|[451527,451757]|231 HSP 1 e-value: 1.0E-114 bit: 410.0 Len: 231 Query Start:1 Query End:231 Subject Strand: POSITIVE Subject Start: 1 Subject End: 231 taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctnnnnnnnntctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt taattgatttgttagataataacaaagggcgtattattacgcccttttcgtgtatttactcataactaaccgataaacaaaagtgcggtcaaattttaaatgatttttaaccgcacttttaatctcccccccctctttacaaaagaggggaaaattcggagaaagaataaaacggggtccccgtataagacgcccgaatggagataggatttttaggaaattttcgcttgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGAUUUGUUAGAUAAUAACAAAGGGCGUAUUAUUACGCCCUUUUCGUGUAUUUACUCAUAACUAACCGAUAAACAAAAGUGCGGUCAAAUUUUAAAUGAUUUUUAACCGCACUUUUAAUCUCCCCCCCCUCUUUACAAAAGAGGGGAAAAUUCGGAGAAAGAAUAAAACGGGGUCCCCGUAUAAGACGCCCGAAUGGAGAUAGGAUUUUUAGGAAAUUUUCGCUUGU .....(((((.(((((..(((..((((((((((....))))))))))...)))................((.......(((((((((((.(((..((....))..))).))))))))))).((((((..((((((((.....))))))))...((((((.(..........(((((...)))))........))))))))))))).))...))))).)))))......... (-70.47) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAAGCGAAAAUUUCCUAAAAAUCCUAUCUCCAUUCGGGCGUCUUAUACGGGGACCCCGUUUUAUUCUUUCUCCGAAUUUUCCCCUCUUUUGUAAAGAGGGGGGGGAGAUUAAAAGUGCGGUUAAAAAUCAUUUAAAAUUUGACCGCACUUUUGUUUAUCGGUUAGUUAUGAGUAAAUACACGAAAAGGGCGUAAUAAUACGCCCUUUGUUAUUAUCUAACAAAUCAAUUA .....((............................((((.(((((.....))))))))).(((((((...((((((.((((((((((((((....)))))))))))))).((((((((((((((((............))))))))))))))))....))))..))....)))))))....))..(((((((((....)))))))))(((((.....)))))......... (-74.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 514 220 174 231 186 aact:AA00239|5end_hypothetical_protein_171213..171443_POSITIVE 489 119 71 185 137 aact:AA02722|5end_cytidine_deaminase_1905379..1905609_POSITIVE 426 129 81 161 110 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 416 119 79 141 100 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 411 129 81 170 114 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 405 130 81 184 125 aact:AA00721|5end_probable_beta-N-acetylhexosaminidase_(lacto-N-biosidase);_dispersin_B_494739..494969_POSITIVE 405 130 81 72 13 aact:AA00719|5end_hypothetical_protein_494627..494857_POSITIVE 399 130 81 179 121 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 393 120 79 143 100 aact:AA00497|5end_hexose_phosphate_transport_system_regulatory_protein;_regulator_of_uhpT_expression_345077..345307_POSITIVE 391 119 78 140 97 aact:AA03010|5end_thiophene_and_furan_oxidation_protein_2101102..2101332_POSITIVE 390 130 81 165 113 aact:AA01407|5end_outer_membrane_antigenic_lipoprotein_b_precursor_949005..949235_POSITIVE 386 229 191 107 70 aact:AA02489|5end_hypothetical_protein_1726454..1726684_POSITIVE 378 125 81 158 115 aact:AA02113|5end_conserved_hypothetical_protein_1442183..1442413_POSITIVE 377 120 75 172 117 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 376 119 72 150 102 aact:AA02084|5end_conserved_hypothetical_protein_1417843..1418073_POSITIVE 376 128 81 159 107 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 376 128 81 58 6 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 369 120 79 158 116 aact:AA02757|5end_histidinol-phosphate_aminotransferase_2_1930634..1930864_POSITIVE 365 200 154 83 28 aact:AA00258|5end_penicillin_binding_protein_2_180814..181044_POSITIVE 358 120 81 163 121 aact:AA01871|5end_conserved_hypothetical_protein_1258223..1258453_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 514 220 174 107 62 aact:AA00237|3end_hypothetical_protein_171169..171319_POSITIVE 509 160 121 49 3 aact:AA02416|3end_conserved_hypothetical_protein_1659578..1659728_POSITIVE 489 119 71 60 12 aact:AA02721|3end_spermidine/putrescine_ABC_transporter,_periplasmic-binding_protein_1905334..1905484_POSITIVE 473 130 81 68 18 aact:AA00010|3end_transposase_orfB_fragment_6297..6447_POSITIVE 410 120 79 79 37 aact:AA02781|3end_protein-export_membrane_protein_1945981..1946131_POSITIVE 406 119 72 78 22 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 405 130 81 88 29 aact:AA00718|3end_ABC-related_ATP-binding_protein;_MRP_protein_494723..494873_POSITIVE 397 129 81 100 47 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 393 120 79 125 82 aact:AA00495|3end_hypothetical_protein_345139..345289_POSITIVE 386 229 191 91 54 aact:AA02487|3end_hypothetical_protein_1726518..1726668_POSITIVE 378 125 81 79 36 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 376 119 72 75 27 aact:AA02082|3end_glutaminyl-tRNA_synthetase_1417848..1417998_POSITIVE 376 128 81 93 41 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 369 120 79 80 38 aact:AA02756|3end_phosphoserine_aminotransferase_1930636..1930786_POSITIVE 365 200 154 93 38 aact:AA00257|3end_rod-shape-determining_protein_180904..181054_POSITIVE 354 120 71 71 15 aact:AA02858|3end_conserved_hypothetical_protein_2006068..2006218_POSITIVE 351 198 158 121 82 aact:AA01113|3end_transcriptional_regulator_(merR_family)_765249..765399_POSITIVE 351 120 77 78 33 aact:AA00896|3end_prolyl-tRNA_synthetase_(proline-tRNA_ligase)_623206..623356_POSITIVE 350 120 79 82 38 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 348 120 79 150 107 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE