Origin IGS: aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atgttttttaactaaattgataatatataatcttgaagaatagaaagataaaagggaaattaaaaggattaactcctatttgttacaaaagttaatccttttatatatttcct Mask Tandem Repeat Region ================================================ aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Find is-nt database================================================ Query_seq: FN1235:FN1236|FN1235:FN1236:Ankyrin repeat proteins:Choline transport protein:-><-:1892489..1892601 113 aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1235:FN1236|FN1235:FN1236:Ankyrin repeat proteins:Choline transport protein:-><-:1892489..1892601 113 aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1235:FN1236|FN1235:FN1236:Ankyrin repeat proteins:Choline transport protein:-><-:1892489..1892601 113 aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Predict ORF larger than 30AA ================================================ aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat 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================================================ aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1235:FN1236|FN1235:FN1236:Ankyrin repeat proteins:Choline transport protein:-><-:1892489..1892601 113 aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: NC_003454_FN1235_FN1236|Ankyrin repeat proteins:Choline transport protein|POSITIVE:NEGATIVE|[1892489,1892601]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat aggaaatatataaaaggattaacttttgtaacaaataggagttaatccttttaatttcccttttatctttctattcttcaagattatatattatcaatttagttaaaaaacat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGAAAUAUAUAAAAGGAUUAACUUUUGUAACAAAUAGGAGUUAAUCCUUUUAAUUUCCCUUUUAUCUUUCUAUUCUUCAAGAUUAUAUAUUAUCAAUUUAGUUAAAAAACAU .((((((...(((((((((((((((((((.....)))))))))))))))))))))))))......................(((........))).................. (-26.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGUUUUUUAACUAAAUUGAUAAUAUAUAAUCUUGAAGAAUAGAAAGAUAAAAGGGAAAUUAAAAGGAUUAACUCCUAUUUGUUACAAAAGUUAAUCCUUUUAUAUAUUUCCU .((((((((((.......(((........)))))))))))))...........(((((((((((((((((((((....((((...))))))))))))))))))...))))))) (-23.41) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 52 12 159 119 NC_003454:FN1997|5end_Transcriptional_regulator_499758..499988_POSITIVE 315 54 12 203 164 NC_003454:FN0496|5end_hypothetical_protein_1140910..1141140_POSITIVE 307 50 12 204 166 NC_003454:FN0864|5end_hypothetical_protein_1522900..1523130_NEGATIVE 289 57 14 171 127 NC_003454:FN1530|5end_Transposase_43625..43855_POSITIVE 284 46 12 231 197 NC_003454:FN1844|5end_Ketoacyl_reductase_hetN_333593..333823_POSITIVE 283 50 6 159 114 NC_003454:FN1343|5end_seC-independent_protein_TATD_1997232..1997462_NEGATIVE 256 85 45 103 56 NC_003454:FN0464|5end_hypothetical_protein_1109675..1109905_POSITIVE 237 90 46 205 155 NC_003454:FN1270|5end_Hypothetical_cytosolic_protein_1926592..1926822_NEGATIVE 235 56 12 210 168 NC_003454:FN0733|5end_peptidase_T_1389564..1389794_POSITIVE 225 80 37 216 165 NC_003454:FN0459|5end_Hypothetical_exported_24-amino_acid_repeat_protein_1104609..1104839_POSITIVE 223 77 42 114 69 NC_003454:FN0453|5end_Xaa-Pro_aminopeptidase_1097547..1097777_POSITIVE 222 78 35 68 20 NC_003454:FN0636|5end_hypothetical_protein_1295170..1295400_POSITIVE 217 56 19 152 107 NC_003454:FN1625|5end_LSU_ribosomal_protein_L15P_132864..133094_NEGATIVE 216 86 43 179 124 NC_003454:FN1807|5end_hypothetical_protein_289479..289709_NEGATIVE 214 78 37 82 37 NC_003454:FN1995|5end_hypothetical_protein_498245..498475_POSITIVE 206 84 46 158 102 NC_003454:FN1054|5end_hypothetical_protein_1701595..1701825_POSITIVE 204 78 31 221 165 NC_003454:FN0065|5end_Transcription_accessory_protein_(S1_RNA_binding_domain)_699933..700163_POSITIVE 201 105 61 126 86 NC_003454:FN0830|5end_hypothetical_protein_1490254..1490484_POSITIVE 198 78 32 158 108 NC_003454:FN1100|5end_Plasmid_addiction_system_poison_protein_1744177..1744407_POSITIVE 198 72 37 103 59 NC_003454:FN1595|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_B_105827..106057_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 412 59 14 151 104 NC_003454:FN1447|3end_Transposase_2117342..2117492_POSITIVE 412 59 11 89 38 NC_003454:FN1235|3end_Ankyrin_repeat_proteins_1892428..1892578_POSITIVE 412 59 14 151 104 NC_003454:FN0841|3end_Transposase_1502804..1502954_POSITIVE 412 59 14 151 104 NC_003454:FN0486|3end_Transposase_1131710..1131860_POSITIVE 412 59 14 151 104 NC_003454:FN0139|3end_Transposase_771640..771790_POSITIVE 412 59 14 151 104 NC_003454:FN1889|3end_Transposase_373027..373177_POSITIVE 378 52 11 60 19 NC_003454:FN1801|3end_Sodium/glutamate_symport_carrier_protein_282636..282786_NEGATIVE 357 59 14 151 104 NC_003454:FN1442|3end_Transposase_2110155..2110305_NEGATIVE 357 59 14 151 104 NC_003454:FN0787|3end_Transposase_1443908..1444058_POSITIVE 336 52 12 63 23 NC_003454:FN1996|3end_Transporter_499742..499892_POSITIVE 315 54 12 68 29 NC_003454:FN0495|3end_Acetyl-CoA_acetyltransferase_1140855..1141005_POSITIVE 307 50 12 64 26 NC_003454:FN0865|3end_hypothetical_protein_1523040..1523190_NEGATIVE 303 50 16 35 1 NC_003454:FN0209|3end_Hypothetical_cytosolic_protein_836800..836950_POSITIVE 291 56 23 34 1 NC_003454:FN1800|3end_Peptidyl-prolyl_cis-trans_isomerase_282534..282684_POSITIVE 288 50 6 75 32 NC_003454:FN0723|3end_hypothetical_protein_1383464..1383614_POSITIVE 281 75 33 46 4 NC_003454:FN1530|3end_Transposase_44061..44211_POSITIVE 275 59 14 151 104 NC_003454:FN1680|3end_Transposase_175971..176121_NEGATIVE 250 57 12 75 34 NC_003454:FN0472|3end_flavodoxin_1117662..1117812_NEGATIVE 237 90 46 52 2 NC_003454:FN1271|3end_Protease_IV_1926745..1926895_NEGATIVE 235 56 12 106 64 NC_003454:FN0732|3end_hypothetical_protein_1389540..1389690_POSITIVE