Origin IGS: tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataaaaccatcctaaagatttattttatattgagtataatactatttatattttatgtaaagccgtttacggttagaaagggcaaacaatatcaataataca Mask Tandem Repeat Region ================================================ tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Find is-nt database================================================ Query_seq: TDE1481:TDE1482|TDE1481:TDE1482:hypothetical protein:peptidase, M24 family protein:->->:1526934..1527035 102 tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1481:TDE1482|TDE1481:TDE1482:hypothetical protein:peptidase, M24 family protein:->->:1526934..1527035 102 tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1481:TDE1482|TDE1481:TDE1482:hypothetical protein:peptidase, M24 family protein:->->:1526934..1527035 102 tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Predict ORF larger than 30AA ================================================ tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat 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: 85 Start: 41 End: 70 ........................................CTTTACATAAAATATAAATAGTATTATACT................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1481:TDE1482|TDE1481:TDE1482:hypothetical protein:peptidase, M24 family protein:->->:1526934..1527035 102 tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: NC_002967_TDE1481_TDE1482|hypothetical protein:peptidase, M24 family protein|POSITIVE:POSITIVE|[1526934,1527035]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat tgtattattgatattgtttgccctttctaaccgtaaacggctttacataaaatataaatagtattatactcaatataaaataaatctttaggatggttttat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUAUUAUUGAUAUUGUUUGCCCUUUCUAACCGUAAACGGCUUUACAUAAAAUAUAAAUAGUAUUAUACUCAAUAUAAAAUAAAUCUUUAGGAUGGUUUUAU .((((((((.(((((((..(((.(((........))).)))...)))....)))).))))))))..........(((((((..(((.....))).))))))) (-12.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAAACCAUCCUAAAGAUUUAUUUUAUAUUGAGUAUAAUACUAUUUAUAUUUUAUGUAAAGCCGUUUACGGUUAGAAAGGGCAAACAAUAUCAAUAAUACA .........((((...........((((((.((((((((......)))))))).))))))(((((....)))))....)))).................... (-15.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 251 55 28 96 69 NC_002967:TDE1861|5end_hypothetical_protein_1886956..1887186_NEGATIVE 241 44 20 43 20 NC_002967:TDE2627|5end_transcriptional_regulator,_TetR_family_2669140..2669370_NEGATIVE 240 50 24 31 6 NC_002967:TDE2320|5end_RNA_polymerase_sigma-24_factor,_putative_2356951..2357181_NEGATIVE 229 44 15 223 196 NC_002967:TDE0898|5end_hypothetical_protein_915878..916108_POSITIVE 224 44 7 201 157 NC_002967:TDE1597|5end_transporter,_putative_1647402..1647632_NEGATIVE 223 46 21 125 102 NC_002967:TDE1229|5end_hypothetical_protein_1262413..1262643_POSITIVE 223 79 38 57 14 NC_002967:TDE0216|5end_hypothetical_protein_251305..251535_POSITIVE 219 41 8 41 7 NC_002967:TDE1180|5end_iron_compound_ABC_transporter,_periplasmic_iron_compound-binding_protein_1209833..1210063_NEGATIVE 214 42 1 159 103 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 212 49 11 165 120 NC_002967:TDE2140|5end_protease_II_2175140..2175370_NEGATIVE 205 43 13 152 106 NC_002967:TDE2103|5end_glycosyl_transferase,_group_2_family_protein_2128393..2128623_NEGATIVE 204 46 15 160 133 NC_002967:TDE1025|5end_ribosomal_protein_L32_1057101..1057331_POSITIVE 202 41 9 43 13 NC_002967:TDE1712|5end_flagellar_filament_outer_layer_protein_1767915..1768145_NEGATIVE 202 47 15 133 91 NC_002967:TDE0201|5end_hypothetical_protein_235363..235593_POSITIVE 201 72 37 51 15 NC_002967:TDE1090|5end_threonyl-tRNA_synthetase_1121106..1121336_POSITIVE 200 48 12 215 164 NC_002967:TDE2235|5end_methylaspartate_ammonia-lyase_2274588..2274818_NEGATIVE 200 41 14 71 39 NC_002967:TDE1383|5end_hypothetical_protein_1422301..1422531_POSITIVE 200 48 1 181 132 NC_002967:TDE0028|5end_ABC_transporter,_ATP-binding_protein,_HlyB_family_35930..36160_NEGATIVE 199 45 1 59 23 NC_002967:TDE0453|5end_hypothetical_protein_510364..510594_NEGATIVE 197 54 14 172 137 NC_002967:TDE2399|5end_ribonuclease_P_protein_component_2426160..2426390_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 245 50 17 34 3 NC_002967:TDE2321|3end_hypothetical_protein_2356948..2357098_NEGATIVE 228 50 8 145 104 NC_002967:TDE1367|3end_glyoxalase_family_protein_1409440..1409590_POSITIVE 225 47 3 148 100 NC_002967:TDE2335|3end_ATP-dependent_DNA_helicase,_UvrD/Rep_family_2371958..2372108_POSITIVE 223 46 21 128 105 NC_002967:TDE1228|3end_pentapeptide_repeat_family_protein_1262496..1262646_POSITIVE 210 42 9 151 120 NC_002967:TDE2552|3end_ABC_transporter,_ATP-binding/permease_protein_2577370..2577520_NEGATIVE 208 47 6 44 6 NC_002967:TDE1096|3end_hydroxymethylbutenyl_pyrophosphate_reductase_1131938..1132088_POSITIVE 202 47 15 62 20 NC_002967:TDE0200|3end_tetrapyrrole_methylase_family_protein_235372..235522_POSITIVE 200 48 12 143 92 NC_002967:TDE2236|3end_methylaspartate_mutase,_E_subunit_2274660..2274810_NEGATIVE 200 41 14 123 91 NC_002967:TDE1382|3end_transcriptional_regulator,_ArsR_family_1422433..1422583_POSITIVE 200 42 13 48 10 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 198 32 4 30 1 NC_002967:TDE0624|3end_precorrin-6X_reductase,_putative_657340..657490_POSITIVE 197 51 13 112 75 NC_002967:TDE2232|3end_iron_compound_ABC_transporter,_ATP-binding_protein,_putative_2270506..2270656_NEGATIVE 196 40 19 28 8 NC_002967:TDE1461|3end_septum_formation_initiator_family_protein_1511710..1511860_POSITIVE 195 100 60 79 25 NC_002967:TDE1634|3end_hypothetical_protein_1682785..1682935_NEGATIVE 191 55 16 131 94 NC_002967:TDE0694|3end_ABC_transporter,_ATP-binding_protein_732002..732152_POSITIVE 188 41 12 65 32 NC_002967:TDE2719|3end_hypothetical_protein_2777015..2777165_POSITIVE 187 43 13 137 104 NC_002967:TDE0741|3end_hypothetical_protein_776185..776335_NEGATIVE 187 47 16 59 34 NC_002967:TDE0559|3end_hypothetical_protein_594126..594276_POSITIVE 185 43 13 119 94 NC_002967:TDE1017|3end_exodeoxyribonuclease_VII,_large_subunit_1049211..1049361_POSITIVE 184 47 15 35 12 NC_002967:TDE0453|3end_hypothetical_protein_510143..510293_NEGATIVE