Origin IGS: taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaagagctgttctgaactgcacccaaaatcttggacacaagattggaggtgcagttcatttctgacagcttcttttctatttatctttttataaaaaggtgatatactttattagtataaaatataaaaggagactaactatgaaaaaaataataatattttatttaatttta Mask Tandem Repeat Region ================================================ taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Find is-nt database================================================ Query_seq: FN0234:FN0235|FN0234:FN0235:hypothetical protein:ABC transporter ATP-binding protein:<-<-:859590..859763 174 taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0234:FN0235|FN0234:FN0235:hypothetical protein:ABC transporter ATP-binding protein:<-<-:859590..859763 174 taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0234:FN0235|FN0234:FN0235:hypothetical protein:ABC transporter ATP-binding protein:<-<-:859590..859763 174 taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 69 End: 173 .................................................................... M S P F Y K K I N R K E A V R N E L H L Q S C V Q D F G C S S E Q L F . taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt 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================================================ taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0234:FN0235|FN0234:FN0235:hypothetical protein:ABC transporter ATP-binding protein:<-<-:859590..859763 174 taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Intra-Species Hit: Count: 1 Min: 1 Max: 174 Len: 174 Subject: NC_003454_FN0234_FN0235|hypothetical protein:ABC transporter ATP-binding protein|NEGATIVE:NEGATIVE|[859590,859763]|174 HSP 1 e-value: 1.0E-81 bit: 303.0 Len: 174 Query Start:1 Query End:174 Subject Strand: POSITIVE Subject Start: 1 Subject End: 174 taaaattaaataaaatattattannnnnnncatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt taaaattaaataaaatattattatttttttcatagttagtctccttttatattttatactaataaagtatatcacctttttataaaaagataaatagaaaagaagctgtcagaaatgaactgcacctccaatcttgtgtccaagattttgggtgcagttcagaacagctctttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUAAAUAAAAUAUUAUUAUUUUUUUCAUAGUUAGUCUCCUUUUAUAUUUUAUACUAAUAAAGUAUAUCACCUUUUUAUAAAAAGAUAAAUAGAAAAGAAGCUGUCAGAAAUGAACUGCACCUCCAAUCUUGUGUCCAAGAUUUUGGGUGCAGUUCAGAACAGCUCUUUU ....................((((((((((.((((..((........((((((((((....))))))))))....))..))))))))))))))....((((((.(((((......((((((((((((..(((((((....)))))))..))))))))))))..))))))))))) (-49.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAGAGCUGUUCUGAACUGCACCCAAAAUCUUGGACACAAGAUUGGAGGUGCAGUUCAUUUCUGACAGCUUCUUUUCUAUUUAUCUUUUUAUAAAAAGGUGAUAUACUUUAUUAGUAUAAAAUAUAAAAGGAGACUAACUAUGAAAAAAAUAAUAAUAUUUUAUUUAAUUUUA ((((((((((((.(((((((((((...(((((((....)))))))...))))))))))).....)))))).))))))....(((((((((....)))))))))((((((.....)))))).........((....)).....((((.((((((....)))))).))))...... (-50.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 848 140 91 231 182 NC_003454:FN0234|5end_hypothetical_protein_859499..859729_NEGATIVE 810 165 121 142 98 NC_003454:FN0485|5end_Transposase_1130267..1130497_POSITIVE 796 160 111 137 90 NC_003454:FN0840|5end_Transposase_1501361..1501591_POSITIVE 782 160 111 224 178 NC_003454:FN1972|5end_hypothetical_protein_472071..472301_NEGATIVE 779 160 111 126 80 NC_003454:FN1446|5end_Transposase_2116033..2116263_POSITIVE 779 160 111 138 92 NC_003454:FN1887|5end_Transposase_371671..371901_POSITIVE 751 160 112 139 92 NC_003454:FN1443|5end_Transposase_2111518..2111748_NEGATIVE 751 160 112 139 92 NC_003454:FN0786|5end_Transposase_1442465..1442695_POSITIVE 751 160 112 139 92 NC_003454:FN0135|5end_Transposase_770238..770468_POSITIVE 610 159 111 209 156 NC_003454:FN0210|5end_Transcriptional_regulator,_COPG_family_836998..837228_POSITIVE 442 159 115 72 28 NC_003454:FN0839|5end_hypothetical_protein_1501426..1501656_NEGATIVE 429 159 116 202 159 NC_003454:FN1444|5end_GMP_synthase_[glutamine-hydrolyzing]_2111585..2111815_POSITIVE 312 61 24 124 82 NC_003454:FN1515|5end_Phophatidylinositol-4-phosphate_5-kinase_18905..19135_POSITIVE 310 130 107 49 25 NC_003454:FN0327|5end_Bacterial_Protein_Translation_Initiation_Factor_3_(IF-3)_962149..962379_NEGATIVE 285 57 20 67 29 NC_003454:FN2007|5end_Glutathione_peroxidase_507476..507706_NEGATIVE 273 170 126 178 122 NC_003454:FN0723|5end_hypothetical_protein_1381528..1381758_POSITIVE 252 170 121 137 96 NC_003454:FN0219|5end_Autolysin_response_regulator_843316..843546_NEGATIVE 248 64 21 106 54 NC_003454:FN0614|5end_Export_ABC_transporter_1271447..1271677_POSITIVE 237 74 31 137 89 NC_003454:FN1459|5end_Phospho-N-acetylmuramoyl-pentapeptide-_transferase_2141360..2141590_NEGATIVE 235 134 104 26 2 NC_003454:FN1405|5end_Formiminotetrahydrofolate_cyclodeaminase_2064287..2064517_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 810 165 121 67 23 NC_003454:FN0484|3end_Lipase_1130272..1130422_POSITIVE 782 160 111 65 19 NC_003454:FN1973|3end_Translation_initiation_inhibitor_472230..472380_NEGATIVE 779 160 111 141 95 NC_003454:FN1886|3end_hypothetical_protein_371754..371904_POSITIVE 768 158 111 83 32 NC_003454:FN1905|3end_168_kDa_surface-layer_protein_precursor_393653..393803_NEGATIVE 767 160 117 82 39 NC_003454:FN1464|3end_1-deoxy-D-xylulose-5-phosphate_synthase_2145954..2146104_NEGATIVE 742 158 112 75 29 NC_003454:FN1547|3end_PTS_permease_for_N-acetylglucosamine_and_glucose_61801..61951_NEGATIVE 634 158 115 80 37 NC_003454:FN1221|3end_hypothetical_protein_1881290..1881440_POSITIVE 608 160 116 87 43 NC_003454:FN1500|3end_Nickel_transport_ATP-binding_protein_nikE_5193..5343_NEGATIVE 509 159 111 84 36 NC_003454:FN1545|3end_Ferredoxin_like_protein_59497..59647_POSITIVE 503 160 111 83 32 NC_003454:FN1463|3end_pyridoxine_biosynthesis_protein_2145924..2146074_POSITIVE 428 159 111 89 41 NC_003454:FN1904|3end_Transcriptional_regulator,_MarR_family_393633..393783_POSITIVE 420 158 116 43 1 NC_003454:FN1019|3end_3-hydroxybutyryl-CoA_dehydrogenase_1672945..1673095_NEGATIVE 375 159 111 71 24 NC_003454:FN0435|3end_Purine_nucleoside_phosphorylase_1077821..1077971_POSITIVE 375 159 111 70 25 NC_003454:FN0178|3end_UNC-44_ankyrins_802390..802540_NEGATIVE 374 160 111 79 31 NC_003454:FN1498|3end_Integral_membrane_protein_3542..3692_POSITIVE 357 159 111 84 37 NC_003454:FN1143|3end_glucosamine-6-phosphate_deaminase_1793365..1793515_POSITIVE 347 159 111 77 23 NC_003454:FN1546|3end_translation_elongation_factor_EF-G_59529..59679_NEGATIVE 347 159 113 80 33 NC_003454:FN1499|3end_Cell_surface_protein_5166..5316_POSITIVE 340 159 111 71 25 NC_003454:FN1144|3end_hypothetical_protein_1793403..1793553_NEGATIVE 324 160 111 74 25 NC_003454:FN1022|3end_Calcium-transporting_ATPase_1677501..1677651_POSITIVE