Origin IGS: atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acaacaattgagaattagagtatttaatttcctatcaacttttggagaagcaattggaactaaattcagaaacatatcagggaaaactggacagtacaatgttccaggggaactgtttcagaagaggactcatagaaaaaatagagttttaattccttggaaagat Mask Tandem Repeat Region ================================================ atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Find is-nt database================================================ Query_seq: FN2075:FN2076|FN2075:FN2076:hypothetical protein:MunI regulatory protein:<-<-:587460..587625 166 atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN2075:FN2076|FN2075:FN2076:hypothetical protein:MunI regulatory protein:<-<-:587460..587625 166 atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN2075:FN2076|FN2075:FN2076:hypothetical protein:MunI regulatory protein:<-<-:587460..587625 166 atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 68 End: 166 ................................................................... M Y C P V F P D M F L N L V P I A S P K V D R K L N T L I L N C C Protein_Len: 41 Strand: - Start: 18 End: 140 ................. F E I K E I L G R R F C N G Q F M T S D L K G Q Y T E S N L E L Q K E L L Q Y S M .......................... Protein_Len: 53 Strand: - Start: 1 End: 159 D K W P I L V R N K R H T R K Q F L E G P V N Y Q G T K G S I N R F K T G I A E G F T S L F N F V R I R M ....... atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt 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================================================ atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN2075:FN2076|FN2075:FN2076:hypothetical protein:MunI regulatory protein:<-<-:587460..587625 166 atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Intra-Species Hit: Count: 1 Min: 1 Max: 166 Len: 166 Subject: NC_003454_FN2075_FN2076|hypothetical protein:MunI regulatory protein|NEGATIVE:NEGATIVE|[587460,587625]|166 HSP 1 e-value: 2.0E-89 bit: 329.0 Len: 166 Query Start:1 Query End:166 Subject Strand: POSITIVE Subject Start: 1 Subject End: 166 atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt atctttccaaggaattaaaactctattttttctatgagtcctcttctgaaacagttcccctggaacattgtactgtccagttttccctgatatgtttctgaatttagttccaattgcttctccaaaagttgataggaaattaaatactctaattctcaattgttgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUUCCAAGGAAUUAAAACUCUAUUUUUUCUAUGAGUCCUCUUCUGAAACAGUUCCCCUGGAACAUUGUACUGUCCAGUUUUCCCUGAUAUGUUUCUGAAUUUAGUUCCAAUUGCUUCUCCAAAAGUUGAUAGGAAAUUAAAUACUCUAAUUCUCAAUUGUUGU ...(((((..((((((((.((((............))))....(((.((((((..((....((((.((((.......)))).))))..))..)))))).))).))))))))....((((......)))).....)))))........................... (-28.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAACAAUUGAGAAUUAGAGUAUUUAAUUUCCUAUCAACUUUUGGAGAAGCAAUUGGAACUAAAUUCAGAAACAUAUCAGGGAAAACUGGACAGUACAAUGUUCCAGGGGAACUGUUUCAGAAGAGGACUCAUAGAAAAAAUAGAGUUUUAAUUCCUUGGAAAGAU ....((((((.((((......))))..(((((...........)))))..))))))....................((((((((..(((((((((.(..((...))..)..)))).)))))...(((((((............)))))))..))))))))...... (-30.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 941 80 31 171 122 NC_003454:FN2075|5end_hypothetical_protein_587369..587599_NEGATIVE 285 64 25 66 21 NC_003454:FN1689|5end_UDP-4-dehydro-6-deoxy-2-acetamido-D-glucose_4-reductase_185598..185828_NEGATIVE 283 79 31 135 87 NC_003454:FN1790|5end_Cob(I)alamin_adenosyltransferase_271511..271741_POSITIVE 267 58 18 209 158 NC_003454:FN1229|5end_hypothetical_protein_1886700..1886930_NEGATIVE 264 124 84 74 43 NC_003454:FN2055|5end_hypothetical_protein_564658..564888_NEGATIVE 260 118 79 135 92 NC_003454:FN0417|5end_Type_III_restriction-modification_system_restriction_subunit_1055887..1056117_POSITIVE 257 73 31 207 159 NC_003454:FN1226|5end_uracil-DNA_glycosylase_1885503..1885733_NEGATIVE 252 120 73 185 142 NC_003454:FN0328|5end_Na(+)-linked_D-alanine_glycine_permease_963771..964001_NEGATIVE 248 47 23 111 88 NC_003454:FN1634|5end_LSU_ribosomal_protein_L24P_136179..136409_NEGATIVE 245 130 83 133 85 NC_003454:FN1267|5end_hypothetical_protein_1923671..1923901_NEGATIVE 244 59 25 39 3 NC_003454:FN1025|5end_Guanine-hypoxanthine_permease_1679931..1680161_NEGATIVE 244 77 32 65 16 NC_003454:FN0709|5end_Virulence_factor_mviN_1367339..1367569_POSITIVE 240 118 73 92 49 NC_003454:FN1067|5end_Tetratricopeptide_repeat_family_protein_1713086..1713316_POSITIVE 236 103 66 66 14 NC_003454:FN0224|5end_excinuclease_ABC_subunit_B_849602..849832_POSITIVE 236 120 71 63 16 NC_003454:FN1577|5end_Rod_shape-determining_protein_mreB_88405..88635_NEGATIVE 235 120 71 88 44 NC_003454:FN1591|5end_RNFB-related_protein_103135..103365_NEGATIVE 233 124 85 68 29 NC_003454:FN0729|5end_Phosphoglycerate_mutase_1386354..1386584_POSITIVE 233 49 2 103 49 NC_003454:FN0019|5end_Transcription-repair_coupling_factor_656549..656779_POSITIVE 233 90 41 85 31 NC_003454:FN1852|5end_hypothetical_protein_341616..341846_POSITIVE 232 130 86 113 60 NC_003454:FN0284|5end_16S_rRNA_processing_protein_rimM_913923..914153_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 285 64 25 63 18 NC_003454:FN1690|3end_hypothetical_protein_185601..185751_NEGATIVE 283 79 31 123 75 NC_003454:FN1789|3end_Na+_driven_multidrug_efflux_pump_271579..271729_POSITIVE 260 118 79 125 82 NC_003454:FN0416|3end_Type_III_restriction-modification_system_methylation_subunit_1055957..1056107_POSITIVE 252 131 95 146 110 NC_003454:FN1253|3end_hypothetical_protein_1910229..1910379_NEGATIVE 248 47 23 86 63 NC_003454:FN1635|3end_LSU_ribosomal_protein_L14P_136204..136354_NEGATIVE 245 130 83 121 73 NC_003454:FN1268|3end_Methionyl-tRNA_synthetase_1923683..1923833_NEGATIVE 244 77 32 71 22 NC_003454:FN0708|3end_Hypothetical_cytosolic_protein_1367425..1367575_POSITIVE 240 118 73 72 29 NC_003454:FN1066|3end_Exodeoxyribonuclease_VII_large_subunit_1713146..1713296_POSITIVE 236 120 71 61 14 NC_003454:FN1578|3end_hypothetical_protein_88407..88557_NEGATIVE 235 120 71 61 17 NC_003454:FN1592|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_D_103162..103312_NEGATIVE 232 130 86 104 51 NC_003454:FN0285|3end_RNA_binding_protein_913932..914082_NEGATIVE 231 119 77 76 44 NC_003454:FN0081|3end_Ethanolamine_utilization_protein_eutL_720768..720918_POSITIVE 231 63 21 94 22 NC_003454:FN0041|3end_hypothetical_protein_680619..680769_NEGATIVE 231 120 71 50 3 NC_003454:FN1765|3end_pyruvate_kinase_258023..258173_NEGATIVE 224 120 74 111 64 NC_003454:FN0116|3end_Chaperone_protein_dnaK_750156..750306_POSITIVE 222 60 21 134 99 NC_003454:FN0941|3end_Gamma-glutamyltranspeptidase_1593527..1593677_NEGATIVE 219 63 22 147 102 NC_003454:FN2093|3end_General_secretion_pathway_protein_G_603096..603246_NEGATIVE 218 70 22 115 59 NC_003454:FN0595|3end_UDP-N-acetylglucosamine_acyltransferase_1250081..1250231_POSITIVE 214 66 21 126 70 NC_003454:FN1443|3end_Transposase_2111009..2111159_NEGATIVE 214 39 1 45 8 NC_003454:FN1379|3end_Citrate_lyase_beta_chain_2027325..2027475_POSITIVE