Origin IGS: tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaatcacccctattttttaaagtttgtttttatattaatttatatatatattataatataaaataaaaaagtaagcaaagattaattatgaaggtgagaaaagtatagaaaaatagtttgagatagagagtatcaaagcttataaaaaatataatatttcttatattggataattagtgttataatgtaactaaattattaaaacttaaggagtgttata Mask Tandem Repeat Region ================================================ tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Find is-nt database================================================ Query_seq: FN1279:FN1280|FN1279:FN1280:Zinc metallohydrolase, glyoxalase II family:Endonuclease:<-->:1938361..1938581 221 tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1279:FN1280|FN1279:FN1280:Zinc metallohydrolase, glyoxalase II family:Endonuclease:<-->:1938361..1938581 221 tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1279:FN1280|FN1279:FN1280:Zinc metallohydrolase, glyoxalase II family:Endonuclease:<-->:1938361..1938581 221 tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 57 End: 167 ........................................................ M R N I I F F I S F D T L Y L K L F F Y T F L T F I I N L C L L F Y F I L ...................................................... tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 87 Start: 142 End: 171 .............................................................................................................................................TTTGCTTACTTTTTTATTTTATATTATAAT.................................................. PromScan Matrix: RpoD-17 Strand: - Score: 86 Start: 35 End: 64 ..................................TTTCTTATATTGGATAATTAGTGTTATAAT............................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: - Score: 84 Start: 164 End: 193 ...................................................................................................................................................................TTTTATATTAATTTATATATATATTATAAT............................ PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 75 End: 104 ..........................................................................TTTGAGATAGAGAGTATCAAAGCTTATAAA..................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1279:FN1280|FN1279:FN1280:Zinc metallohydrolase, glyoxalase II family:Endonuclease:<-->:1938361..1938581 221 tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaactatttttctatacttttctcaccttcataattaatctttgcttacttttttattttatattataatatatatataaattaatataaaaacaaactttaaaaaataggggtgatttt Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: NC_003454_FN1279_FN1280|Zinc metallohydrolase, glyoxalase II family:Endonuclease|NEGATIVE:POSITIVE|[1938361, 1938581]|221 HSP 1 e-value: 6.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaac.................................................................................................................... tataacactccttaagttttaataatttagttacattataacactaattatccaatataagaaatattatattttttataagctttgatactctctatctcaaac.................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUAACACUCCUUAAGUUUUAAUAAUUUAGUUACAUUAUAACACUAAUUAUCCAAUAUAAGAAAUAUUAUAUUUUUUAUAAGCUUUGAUACUCUCUAUCUCAAAC .............((((....((((((..((((.....))))...))))))....(((((((((((...))))))))))).)))).((((.....))))...... ( -7.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUGAGAUAGAGAGUAUCAAAGCUUAUAAAAAAUAUAAUAUUUCUUAUAUUGGAUAAUUAGUGUUAUAAUGUAACUAAAUUAUUAAAACUUAAGGAGUGUUAUA ((((..((((.....)))).))))..........((((((((((((((.....(((((((...(((((...)))))..)))))))......)))))))))))))) (-19.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 667 100 51 191 142 NC_003454:FN1279|5end_Zinc_metallohydrolase,_glyoxalase_II_family_1938270..1938500_NEGATIVE 202 49 2 62 16 NC_003454:FN0341|5end_transport_protein_975381..975611_NEGATIVE 187 100 51 120 69 NC_003454:FN1473|5end_N-acetylneuraminate_transporter_large_subunit_2155032..2155262_POSITIVE 185 96 56 62 17 NC_003454:FN0143|5end_hypothetical_protein_773897..774127_POSITIVE 185 90 42 224 172 NC_003454:FN1750|5end_Pyruvate-flavodoxin_oxidoreductase_247811..248041_POSITIVE 184 100 53 66 16 NC_003454:FN1726|5end_Na+_driven_multidrug_efflux_pump_226059..226289_NEGATIVE 176 66 29 208 166 NC_003454:FN1321|5end_Acetoacetate_metabolism_regulatory_protein_atoC_1977390..1977620_NEGATIVE 176 50 8 138 98 NC_003454:FN0664|5end_2-nitropropane_dioxygenase_1319758..1319988_POSITIVE 175 37 6 125 89 NC_003454:FN0564|5end_hypothetical_protein_1217017..1217247_NEGATIVE 172 100 73 211 189 NC_003454:FN0608|5end_Exoribonuclease_II_1262142..1262372_POSITIVE 170 39 3 137 97 NC_003454:FN1938|5end_hypothetical_protein_438416..438646_NEGATIVE 169 96 60 41 8 NC_003454:FN1742|5end_V-type_sodium_ATP_synthase_subunit_G_240790..241020_NEGATIVE 166 43 8 139 99 NC_003454:FN1162|5end_Hydroxyacylglutathione_hydrolase_1820161..1820391_POSITIVE 165 32 1 100 65 NC_003454:FN1001|5end_Dethiobiotin_synthetase_1656011..1656241_POSITIVE 161 100 70 110 82 NC_003454:FN1112|5end_Dipeptide_transport_system_permease_protein_dppC_1756977..1757207_NEGATIVE 161 49 11 156 114 NC_003454:FN0475|5end_MIAB_protein_1122120..1122350_POSITIVE 161 100 71 189 164 NC_003454:FN1915|5end_Anti-sigma_B_factor_412320..412550_NEGATIVE 160 100 56 58 5 NC_003454:FN1282|5end_LSU_ribosomal_protein_L17P_1941619..1941849_NEGATIVE 159 100 63 108 77 NC_003454:FN1182|5end_hypothetical_protein_1845438..1845668_NEGATIVE 159 100 69 68 34 NC_003454:FN1975|5end_ATP-dependent_RNA_helicase_475599..475829_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 202 97 63 87 51 NC_003454:FN0031|3end_hypothetical_protein_667899..668049_NEGATIVE 187 100 51 96 45 NC_003454:FN1472|3end_N-acetylneuraminate-binding_protein_2155088..2155238_POSITIVE 184 100 53 63 13 NC_003454:FN1727|3end_Chloride_channel_protein_226062..226212_NEGATIVE 176 66 29 143 101 NC_003454:FN1322|3end_Membrane_metalloprotease_1977455..1977605_NEGATIVE 176 50 8 97 57 NC_003454:FN0663|3end_hypothetical_protein_1319797..1319947_POSITIVE 175 37 6 91 55 NC_003454:FN0565|3end_hypothetical_protein_1217051..1217201_NEGATIVE 170 39 3 59 19 NC_003454:FN1939|3end_hypothetical_protein_438494..438644_NEGATIVE 165 32 1 110 75 NC_003454:FN1000|3end_biotin_synthase_1656101..1656251_POSITIVE 165 87 42 149 105 NC_003454:FN1972|3end_hypothetical_protein_471703..471853_NEGATIVE 161 100 70 110 82 NC_003454:FN1113|3end_Dipeptide_transport_system_permease_protein_dppB_1756977..1757127_NEGATIVE 161 100 71 103 78 NC_003454:FN1916|3end_hypothetical_protein_412406..412556_NEGATIVE 159 100 63 118 87 NC_003454:FN1183|3end_Hypothetical_cytosolic_protein_1845428..1845578_NEGATIVE 156 98 54 137 99 NC_003454:FN0756|3end_Ribosomal_large_subunit_pseudouridine_synthase_B_1414962..1415112_NEGATIVE 155 33 5 131 98 NC_003454:FN1696|3end_UDP-4-dehydro-6-deoxy-2-acetamido-D-glucose_4-reductase_190876..191026_NEGATIVE 154 37 8 97 68 NC_003454:FN0665|3end_N-acetylmuramoyl-L-alanine_amidase_1321626..1321776_POSITIVE 154 97 66 71 38 NC_003454:FN1976|3end_4-amino-4-deoxychorismate_lyase_478207..478357_POSITIVE 153 40 1 112 70 NC_003454:FN0501|3end_Arginase_1149587..1149737_NEGATIVE 153 90 55 127 93 NC_003454:FN0137|3end_Transposase_771280..771430_POSITIVE 152 78 34 115 67 NC_003454:FN1068|3end_Smf_protein_1714757..1714907_POSITIVE 152 39 8 110 81 NC_003454:FN0319|3end_Citrate_(pro-3S)-lyase_ligase_955818..955968_NEGATIVE