Origin IGS: aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcaaaacctcctaatataaaaaaattttataataaaatatttagtttattataatgcatattgcactatgatgtcaattacaaatttatgtattttataaaaaataaagaacccagtttaaaactaagttctttactcaatgttataaaatttctt Mask Tandem Repeat Region ================================================ aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Find is-nt database================================================ Query_seq: FN0191:FN0192|FN0191:FN0192:ATP-dependent DNA helicase recG:Dipeptide-binding protein:->->:817326..817481 156 aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0191:FN0192|FN0191:FN0192:ATP-dependent DNA helicase recG:Dipeptide-binding protein:->->:817326..817481 156 aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0191:FN0192|FN0191:FN0192:ATP-dependent DNA helicase recG:Dipeptide-binding protein:->->:817326..817481 156 aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 1 End: 99 L F K I V N L L S S L K L S P E K N K I F Y M F K Y N V D Y H L M ......................................................... aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga 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================================================ aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 73 HP_score: -3.5 Tail_Score: -5.80817 Start: 120 End: 132 Full_Region: ATAATAAACTAAATA TTTTA TTA TAAAA TTTTTTTATATTAGG .......................................................................................................................TTTTATTATAAAA........................ Find igs database================================================ Query_seq: FN0191:FN0192|FN0191:FN0192:ATP-dependent DNA helicase recG:Dipeptide-binding protein:->->:817326..817481 156 aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Intra-Species Hit: Count: 1 Min: 1 Max: 156 Len: 156 Subject: NC_003454_FN0191_FN0192|ATP-dependent DNA helicase recG:Dipeptide-binding protein|POSITIVE:POSITIVE|[817326,817481]|156 HSP 1 e-value: 5.0E-71 bit: 268.0 Len: 156 Query Start:1 Query End:156 Subject Strand: POSITIVE Subject Start: 1 Subject End: 156 aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaannnnnnnatattaggaggttttga aagaaattttataacattgagtaaagaacttagttttaaactgggttctttattttttataaaatacataaatttgtaattgacatcatagtgcaatatgcattataataaactaaatattttattataaaatttttttatattaggaggttttga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAAAUUUUAUAACAUUGAGUAAAGAACUUAGUUUUAAACUGGGUUCUUUAUUUUUUAUAAAAUACAUAAAUUUGUAAUUGACAUCAUAGUGCAAUAUGCAUUAUAAUAAACUAAAUAUUUUAUUAUAAAAUUUUUUUAUAUUAGGAGGUUUUGA ((((((((((((((....((((((((((((((((.....))))))))))))))))(((((....((((......)))).........(((((((.....))))))).)))))............)))))))))))))).................. (-32.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAAAACCUCCUAAUAUAAAAAAAUUUUAUAAUAAAAUAUUUAGUUUAUUAUAAUGCAUAUUGCACUAUGAUGUCAAUUACAAAUUUAUGUAUUUUAUAAAAAAUAAAGAACCCAGUUUAAAACUAAGUUCUUUACUCAAUGUUAUAAAAUUUCUU .....................(((((((((((((.......((((((((((((.(((.....))).)))))))..)))))....((((((.....))))))...((((((((..(((.....)))..)))))))).....)))))))))))))... (-24.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 55 11 202 161 NC_003454:FN0191|5end_ATP-dependent_DNA_helicase_recG_815752..815982_POSITIVE 206 59 35 33 9 NC_003454:FN1328|5end_Exodeoxyribonuclease_VII_small_subunit_1983129..1983359_NEGATIVE 203 73 31 225 192 NC_003454:FN0283|5end_tRNA_(Guanine-N1)_-methyltransferase_913405..913635_NEGATIVE 199 115 71 90 37 NC_003454:FN1585|5end_hypothetical_protein_97394..97624_NEGATIVE 191 53 11 146 105 NC_003454:FN0002|5end_Ribonuclease_P_protein_component_642548..642778_POSITIVE 189 88 41 66 7 NC_003454:FN0375|5end_Iron(III)-binding_protein_1005293..1005523_POSITIVE 184 89 42 159 110 NC_003454:FN2047|5end_Fusobacterium_outer_membrane_protein_family_556383..556613_NEGATIVE 175 47 8 64 24 NC_003454:FN0160|5end_hypothetical_protein_788279..788509_POSITIVE 168 58 15 96 43 NC_003454:FN0152|5end_Ribonuclease_III_780028..780258_POSITIVE 167 107 66 95 61 NC_003454:FN1591|5end_RNFB-related_protein_103135..103365_NEGATIVE 164 150 108 217 178 NC_003454:FN1422|5end_NA+/H+_antiporter_NHAC_2088426..2088656_NEGATIVE 162 60 20 175 128 NC_003454:FN0972|5end_Cobyrinic_acid_a,c-diamide_synthase_1625607..1625837_NEGATIVE 159 65 29 186 148 NC_003454:FN1551|5end_hypothetical_protein_66187..66417_NEGATIVE 157 105 62 48 6 NC_003454:FN0397|5end_Dipeptide_transport_system_permease_protein_dppB_1035822..1036052_POSITIVE 155 59 19 102 58 NC_003454:FN1084|5end_hypothetical_protein_1728661..1728891_POSITIVE 155 108 67 159 126 NC_003454:FN0082|5end_Ethanolamine_utilization_protein_eutM_720699..720929_POSITIVE 155 90 73 226 209 NC_003454:FN1549|5end_Stomatin_like_protein_63889..64119_POSITIVE 153 55 15 160 122 NC_003454:FN2088|5end_hypothetical_protein_601017..601247_NEGATIVE 152 86 41 158 103 NC_003454:FN0222|5end_Melibiose_carrier_protein_846812..847042_POSITIVE 152 69 28 55 11 NC_003454:FN1803|5end_Transcriptional_regulator,_TetR_family_284214..284444_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 50 6 67 26 NC_003454:FN0191|3end_ATP-dependent_DNA_helicase_recG_817265..817415_POSITIVE 304 55 11 83 42 NC_003454:FN0190|3end_Two-component_sensor_kinase_yesM_815713..815863_POSITIVE 199 115 71 69 16 NC_003454:FN1586|3end_O-succinylbenzoate-CoA_synthase_97415..97565_NEGATIVE 186 95 54 124 88 NC_003454:FN2106|3end_Transporter_618094..618244_POSITIVE 178 37 7 151 120 NC_003454:FN1764|3end_Enolase_256693..256843_NEGATIVE 173 68 21 72 13 NC_003454:FN0221|3end_Carbon_starvation_protein_A_846713..846863_POSITIVE 168 58 15 80 27 NC_003454:FN0151|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_780092..780242_POSITIVE 167 107 66 68 34 NC_003454:FN1592|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_D_103162..103312_NEGATIVE 163 116 81 141 111 NC_003454:FN1989|3end_Sodium-dependent_tyrosine_transporter_493827..493977_POSITIVE 162 60 18 91 49 NC_003454:FN1119|3end_50S_ribosomal_protein_L27_1761253..1761403_POSITIVE 156 47 2 120 72 NC_003454:FN0690|3end_hypothetical_protein_1345731..1345881_POSITIVE 155 110 73 62 27 NC_003454:FN0886|3end_Hemin_receptor_1547830..1547980_POSITIVE 155 108 67 148 115 NC_003454:FN0081|3end_Ethanolamine_utilization_protein_eutL_720768..720918_POSITIVE 153 53 23 71 41 NC_003454:FN0575|3end_hypothetical_protein_1225584..1225734_POSITIVE 150 59 25 134 87 NC_003454:FN1792|3end_hypothetical_protein_272899..273049_NEGATIVE 149 61 28 135 93 NC_003454:FN1364|3end_LSU_ribosomal_protein_L32P_2015382..2015532_NEGATIVE 147 95 52 151 104 NC_003454:FN0554|3end_D-serine_permease_1206094..1206244_NEGATIVE 147 150 120 89 53 NC_003454:FN1728|3end_Pyrrolidone-carboxylate_peptidase_227722..227872_NEGATIVE 145 146 114 94 56 NC_003454:FN0231|3end_hypothetical_protein_857238..857388_NEGATIVE 144 48 9 47 8 NC_003454:FN1980|3end_Transporter_483252..483402_POSITIVE