Origin IGS: aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatttaatttatttgattacttgatagcctataatgttttttgagtttctaaatactccttcaacattataggacatctcagtaactaacttaaaaaatatttatt Mask Tandem Repeat Region ================================================ aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Find is-nt database================================================ Query_seq: FN1076:FN1077|FN1076:FN1077:hypothetical protein:hypothetical protein:-><-:1723738..1723843 106 aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1076:FN1077|FN1076:FN1077:hypothetical protein:hypothetical protein:-><-:1723738..1723843 106 aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1076:FN1077|FN1076:FN1077:hypothetical protein:hypothetical protein:-><-:1723738..1723843 106 aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 6 End: 95 ..... M F F K L V T E M S Y N V E G V F R N S K N I I G Y Q V I K ........... aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt 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================================================ aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1076:FN1077|FN1076:FN1077:hypothetical protein:hypothetical protein:-><-:1723738..1723843 106 aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: NC_003454_FN1076_FN1077|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[1723738,1723843]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt aataaatattttttaagttagttactgagatgtcctataatgttgaaggagtatttagaaactcaaaaaacattataggctatcaagtaatcaaataaattaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAAAUAUUUUUUAAGUUAGUUACUGAGAUGUCCUAUAAUGUUGAAGGAGUAUUUAGAAACUCAAAAAACAUUAUAGGCUAUCAAGUAAUCAAAUAAAUUAAAUU ...........(((((.((.((((((..((((.(((((((((((....((((........))))....))))))))))).)))).)))))).)).....))))).. (-26.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUAAUUUAUUUGAUUACUUGAUAGCCUAUAAUGUUUUUUGAGUUUCUAAAUACUCCUUCAACAUUAUAGGACAUCUCAGUAACUAACUUAAAAAAUAUUUAUU .......((((.(((.(((((.(((..(((((((((((....((((........))))....)))))))))))..)))..))))).)))..))))........... (-23.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 465 56 12 228 183 NC_003454:FN1731|5end_Anthranilate_synthase_component_II_231037..231267_NEGATIVE 372 64 21 212 169 NC_003454:FN1740|5end_ATP_synthase_subunit_K_238400..238630_NEGATIVE 343 56 11 217 171 NC_003454:FN0186|5end_Cytochrome_c-type_biogenesis_protein_ccdA_810853..811083_POSITIVE 338 56 11 198 154 NC_003454:FN1142|5end_Oxygen-independent_coproporphyrinogen_III_oxidase_1791529..1791759_POSITIVE 319 80 31 189 139 NC_003454:FN0053|5end_Branched-chain_amino_acid_transport_system_carrier_protein_689340..689570_POSITIVE 316 80 31 231 182 NC_003454:FN1581|5end_DNA_mismatch_repair_protein_mutS_93231..93461_NEGATIVE 283 56 14 178 139 NC_003454:FN1439|5end_Transcriptional_regulator,_DeoR_family_2106428..2106658_POSITIVE 283 56 14 74 35 NC_003454:FN1438|5end_hypothetical_protein_2106324..2106554_POSITIVE 264 90 41 222 175 NC_003454:FN1995|5end_hypothetical_protein_498245..498475_POSITIVE 244 80 31 229 179 NC_003454:FN0054|5end_tyrosyl-tRNA_synthetase_690836..691066_POSITIVE 233 51 12 206 168 NC_003454:FN1328|5end_Exodeoxyribonuclease_VII_small_subunit_1983129..1983359_NEGATIVE 212 79 35 205 161 NC_003454:FN2091|5end_hypothetical_protein_602481..602711_NEGATIVE 187 72 32 68 22 NC_003454:FN0438|5end_Branched_chain_amino_acid_transport_system_II_carrier_protein_1080822..1081052_NEGATIVE 185 49 16 37 4 NC_003454:FN1135|5end_Phosphonates-binding_protein_1782131..1782361_POSITIVE 184 53 14 200 155 NC_003454:FN1419|5end_methionine_gamma-lyase_2080565..2080795_POSITIVE 184 50 2 137 90 NC_003454:FN0185|5end_hypothetical_protein_810469..810699_NEGATIVE 179 72 34 223 191 NC_003454:FN1361|5end_Dipeptide_transport_system_permease_protein_dppC_2013051..2013281_POSITIVE 179 92 64 180 155 NC_003454:FN0314|5end_Caffeoyl-CoA_O-methyltransferase_951204..951434_POSITIVE 175 55 12 76 42 NC_003454:FN0173|5end_hypothetical_protein_797839..798069_POSITIVE 171 88 41 228 183 NC_003454:FN1065|5end_hypothetical_protein_1711342..1711572_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 450 79 31 67 19 NC_003454:FN0828|3end_ABC_transporter_permease_protein_1489505..1489655_POSITIVE 372 64 21 51 8 NC_003454:FN1741|3end_ATP_synthase_subunit_I_238561..238711_NEGATIVE 319 80 31 60 10 NC_003454:FN0052|3end_Arsenate_reductase_689291..689441_POSITIVE 313 95 62 40 7 NC_003454:FN1329|3end_Methyltransferase_1983342..1983492_NEGATIVE 301 79 34 57 12 NC_003454:FN1076|3end_hypothetical_protein_1723677..1723827_POSITIVE 296 89 41 64 15 NC_003454:FN1259|3end_Uracil-DNA_glycosylase_1915756..1915906_POSITIVE 292 79 31 55 7 NC_003454:FN0829|3end_hypothetical_protein_1489580..1489730_NEGATIVE 212 79 35 72 28 NC_003454:FN2092|3end_Integral_membrane_protein_602614..602764_NEGATIVE 208 64 23 72 17 NC_003454:FN0840|3end_Transposase_1501950..1502100_POSITIVE 208 64 23 72 17 NC_003454:FN0485|3end_Transposase_1130856..1131006_POSITIVE 187 72 32 53 7 NC_003454:FN0439|3end_hypothetical_protein_1080837..1080987_NEGATIVE 179 64 23 72 17 NC_003454:FN1443|3end_Transposase_2111009..2111159_NEGATIVE 179 64 23 72 17 NC_003454:FN0786|3end_Transposase_1443054..1443204_POSITIVE 179 64 23 72 17 NC_003454:FN0136|3end_Transposase_770813..770963_POSITIVE 171 59 15 129 95 NC_003454:FN0575|3end_hypothetical_protein_1225584..1225734_POSITIVE 166 49 6 112 58 NC_003454:FN1509|3end_hypothetical_protein_14099..14249_NEGATIVE 165 65 22 136 96 NC_003454:FN1919|3end_Methyltransferase_415133..415283_NEGATIVE 161 56 18 68 33 NC_003454:FN1091|3end_Sigma_factor_sigB_regulation_protein_rsbU_1737338..1737488_POSITIVE 158 58 11 143 94 NC_003454:FN0236|3end_ABC_transporter_substrate-binding_protein_860412..860562_NEGATIVE 156 46 7 72 22 NC_003454:FN1375|3end_Citrate-sodium_symport_2023860..2024010_POSITIVE