Origin IGS: catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgcttatcctcctatatattctattcttatgcataagaataagtctttatttcttcaagtgcggtgcaagtttctattttgcattgtctattatccttataaacaagttctgtttctttatccgcaaaactctttatctcattggtattataaccgtattatgtgtatatg Mask Tandem Repeat Region ================================================ catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Find is-nt database================================================ Query_seq: TDE2740:TDE2741|TDE2740:TDE2741:type I restriction-modification system, S subunit, truncation:hypothetical protein:->->:2795831..2796002 172 catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2740:TDE2741|TDE2740:TDE2741:type I restriction-modification system, S subunit, truncation:hypothetical protein:->->:2795831..2796002 172 catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2740:TDE2741|TDE2740:TDE2741:type I restriction-modification system, S subunit, truncation:hypothetical protein:->->:2795831..2796002 172 catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 35 End: 142 .................................. M K S F A D K E T E L V Y K D N R Q C K I E T C T A L E E I K T Y S Y A .............................. Protein_Len: 52 Strand: - Start: 3 End: 158 .. I C M I R N Y Y W H S L S N Q P Y L F L V Q K Y P Y Y V I C F L F K C R V Q L F L S K N K H M L I S Y M .............. Protein_Len: 57 Strand: - Start: 2 End: 172 . Y V C L V T I I G I L Y L T K R I F F C F K N I L I I S L A F Y F S A G C K F F Y L S I R I C L F L I Y L L I L M catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa 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================================================ catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2740:TDE2741|TDE2740:TDE2741:type I restriction-modification system, S subunit, truncation:hypothetical protein:->->:2795831..2796002 172 catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Intra-Species Hit: Count: 1 Min: 1 Max: 172 Len: 172 Subject: NC_002967_TDE2740_TDE2741|type I restriction-modification system, S subunit, truncation:hypothetical protein|POSITIVE:POSITIVE|[2795831,2796002]|172 HSP 1 e-value: 5.0E-93 bit: 341.0 Len: 172 Query Start:1 Query End:172 Subject Strand: POSITIVE Subject Start: 1 Subject End: 172 catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa catatacacataatacggttataataccaatgagataaagagttttgcggataaagaaacagaacttgtttataaggataatagacaatgcaaaatagaaacttgcaccgcacttgaagaaataaagacttattcttatgcataagaatagaatatataggaggataagcaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUAUACACAUAAUACGGUUAUAAUACCAAUGAGAUAAAGAGUUUUGCGGAUAAAGAAACAGAACUUGUUUAUAAGGAUAAUAGACAAUGCAAAAUAGAAACUUGCACCGCACUUGAAGAAAUAAAGACUUAUUCUUAUGCAUAAGAAUAGAAUAUAUAGGAGGAUAAGCAA ................(.((((..(.((...........((((...((((...............((((((((.......)))))))).((((.........)))).))))))))..............(((((((((....)))))))))........)))..)))).).. (-25.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGCUUAUCCUCCUAUAUAUUCUAUUCUUAUGCAUAAGAAUAAGUCUUUAUUUCUUCAAGUGCGGUGCAAGUUUCUAUUUUGCAUUGUCUAUUAUCCUUAUAAACAAGUUCUGUUUCUUUAUCCGCAAAACUCUUUAUCUCAUUGGUAUUAUAACCGUAUUAUGUGUAUAUG .............(((((((..((((((((....))))))))................(((((((((((((.......)))))......(((((.....(((((..((((.(((..........))).)))).))))).....))))).....))))))))..))))))).. (-24.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 246 69 34 228 198 NC_002967:TDE1428|5end_hypothetical_protein_1471107..1471337_POSITIVE 243 168 122 199 135 NC_002967:TDE0195|5end_acetyltransferase,_GNAT_family_232511..232741_NEGATIVE 230 170 125 129 92 NC_002967:TDE2738|5end_oligoendopeptidase_F,_putative_2792763..2792993_POSITIVE 228 107 61 169 107 NC_002967:TDE2466|5end_hypothetical_protein_2489860..2490090_NEGATIVE 228 150 103 207 144 NC_002967:TDE1969|5end_sigma-54_dependent_transcriptional_regulator/response_regulator_1984500..1984730_NEGATIVE 227 78 32 74 31 NC_002967:TDE1249|5end_hypothetical_protein_1283525..1283755_POSITIVE 223 165 131 54 14 NC_002967:TDE0379|5end_hypothetical_protein_432458..432688_POSITIVE 222 88 46 65 19 NC_002967:TDE0117|5end_lipoprotein,_putative_135613..135843_POSITIVE 220 50 11 131 86 NC_002967:TDE1539|5end_hypothetical_protein_1583508..1583738_POSITIVE 217 170 121 51 5 NC_002967:TDE2233|5end_iron_compound_ABC_transporter,_permease_protein,_putative_2272310..2272540_NEGATIVE 216 170 125 152 103 NC_002967:TDE2528|5end_hypothetical_protein_2556912..2557142_NEGATIVE 216 69 30 214 168 NC_002967:TDE1378|5end_hypothetical_protein_1419956..1420186_NEGATIVE 215 167 122 222 166 NC_002967:TDE1260|5end_cholinephosphate_cytidylyltransferase/choline_kinase_1294028..1294258_POSITIVE 215 71 32 120 85 NC_002967:TDE1027|5end_ribonuclease_III_1057562..1057792_POSITIVE 214 90 41 53 9 NC_002967:TDE2341|5end_membrane-associated_zinc_metalloprotease,_putative_2379218..2379448_NEGATIVE 214 70 27 65 20 NC_002967:TDE2258|5end_surface_antigen_BspA,_putative_2296401..2296631_NEGATIVE 212 112 80 151 120 NC_002967:TDE2232|5end_iron_compound_ABC_transporter,_ATP-binding_protein,_putative_2271285..2271515_NEGATIVE 212 50 8 58 16 NC_002967:TDE0815|5end_hypothetical_protein_837365..837595_NEGATIVE 210 52 17 46 20 NC_002967:TDE2554|5end_chaperonin,_33_kDa_family_2580745..2580975_POSITIVE 208 147 105 200 159 NC_002967:TDE1714|5end_N-acetylmuramoyl-L-alanine_amidase,_family_3_1769496..1769726_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 254 108 66 134 95 NC_002967:TDE1676|3end_ribosomal_protein_S18_1729373..1729523_NEGATIVE 239 78 36 99 61 NC_002967:TDE2724|3end_hypothetical_protein_2782282..2782432_POSITIVE 233 77 37 110 69 NC_002967:TDE1462|3end_Sua5/YciO/YrdC/YwlC_family_protein_1512239..1512389_POSITIVE 231 142 108 46 9 NC_002967:TDE1084|3end_folylpolyglutamate_synthetase,_putative_1114934..1115084_NEGATIVE 228 107 61 148 86 NC_002967:TDE2467|3end_hypothetical_protein_2489881..2490031_NEGATIVE 227 170 130 73 36 NC_002967:TDE2074|3end_radical_SAM_enzyme,_Cfr_family_2101537..2101687_POSITIVE 227 78 32 89 46 NC_002967:TDE1248|3end_hypothetical_protein_1283620..1283770_POSITIVE 220 50 11 128 83 NC_002967:TDE1538|3end_DNA_ligase,_NAD-dependent_1583585..1583735_POSITIVE 220 146 101 78 26 NC_002967:TDE0745|3end_glycine_reductase_complex_selenoprotein_GrdA_780840..780990_POSITIVE 217 170 121 51 5 NC_002967:TDE2234|3end_iron_compound_ABC_transporter,_periplasmic_iron_compound-binding_protein,_putative_2272310..2272460_NEGATIVE 216 170 125 86 37 NC_002967:TDE2529|3end_hypothetical_protein_2556978..2557128_NEGATIVE 215 71 32 96 61 NC_002967:TDE1026|3end_acyl_carrier_protein_1057618..1057768_POSITIVE 212 112 80 145 114 NC_002967:TDE2233|3end_iron_compound_ABC_transporter,_permease_protein,_putative_2271291..2271441_NEGATIVE 212 50 8 52 10 NC_002967:TDE0816|3end_peptidase,_M20/M25/M40_family_837371..837521_NEGATIVE 208 89 49 76 33 NC_002967:TDE0583|3end_hypothetical_protein_621426..621576_NEGATIVE 203 127 104 31 4 NC_002967:TDE2142|3end_methyl-accepting_chemotaxis_protein_2177987..2178137_POSITIVE 200 130 83 68 20 NC_002967:TDE0575|3end_aspartyl/glutamyl-tRNA_amidotransferase_subunit_B_606252..606402_NEGATIVE 197 145 103 80 40 NC_002967:TDE2769|3end_flagellar_hook_assembly_protein_2822523..2822673_NEGATIVE 197 79 40 72 24 NC_002967:TDE2101|3end_hypothetical_protein_2125549..2125699_NEGATIVE 197 141 108 121 84 NC_002967:TDE0408|3end_oxidoreductase,_NAD-binding_460536..460686_NEGATIVE