Origin IGS: cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agaaaggctgcaatctgtggattgcggtctttttaggtacaagattgccagctgaaatgtggtataataagaggtaatagagtttggaaagtgagagaag Mask Tandem Repeat Region ================================================ cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Find is-nt database================================================ Query_seq: SMT_953:SMT_954|SMT_953:SMT_954:hypothetical protein:cation-transporting ATPase, E1-E2 family:<-<-:901667..901766 100 cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_953:SMT_954|SMT_953:SMT_954:hypothetical protein:cation-transporting ATPase, E1-E2 family:<-<-:901667..901766 100 cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_953:SMT_954|SMT_953:SMT_954:hypothetical protein:cation-transporting ATPase, E1-E2 family:<-<-:901667..901766 100 cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Predict ORF larger than 30AA ================================================ cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct 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================================================ cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_953:SMT_954|SMT_953:SMT_954:hypothetical protein:cation-transporting ATPase, E1-E2 family:<-<-:901667..901766 100 cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: smit_SMT_953_SMT_954|hypothetical protein:cation-transporting ATPase, E1-E2 family|NEGATIVE:NEGATIVE|[901667,901766]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct cttctctcactttccaaactctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct Inter-species Hit: Count: 2 Min: 1 Max: 100 Len: 100 Subject: NC_008533_SPD_1435_SPD_1436|hypothetical protein:cation-transporting ATPase, E1-E2 family protein|NEGATIVE:NEGATIVE|[1452160,1452260]|101 HSP 1 e-value: 1.0E-36 bit: 153.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 cttctctcactttccaaa-ctctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct cttctctcactttccaaaactctattacctcttattataccacatttcggctggcaatcttgtacctaaaaaaactgcaatccacagattgcagtctttct Subject: NC_003098_spr1463_spr1464|hypothetical protein:P-type ATPase - metal cation transport|NEGATIVE:NEGATIVE|[1444629,1444729]|101 HSP 1 e-value: 1.0E-36 bit: 153.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 cttctctcactttccaaa-ctctattacctcttattataccacatttcagctggcaatcttgtacctaaaaagaccgcaatccacagattgcagcctttct cttctctcactttccaaaactctattacctcttattataccacatttcggctggcaatcttgtacctaaaaaaactgcaatccacagattgcagtctttct Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUCUCUCACUUUCCAAACUCUAUUACCUCUUAUUAUACCACAUUUCAGCUGGCAAUCUUGUACCUAAAAAGACCGCAAUCCACAGAUUGCAGCCUUUCU ...................................................(((..((((.........))))..((((((....)))))).)))..... (-13.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAAGGCUGCAAUCUGUGGAUUGCGGUCUUUUUAGGUACAAGAUUGCCAGCUGAAAUGUGGUAUAAUAAGAGGUAAUAGAGUUUGGAAAGUGAGAGAAG (((((((((((((((....))))))))))))))).((((......))))..(..((......(((........)))......))..)............. (-24.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 927 100 51 191 142 smit:SMT_953|5end_hypothetical_protein_901576..901806_NEGATIVE 345 97 52 61 2 smit:SMT_1510|5end_ribose_5-phosphate_isomerase_1493488..1493718_NEGATIVE 288 100 58 107 48 smit:SMT_1760|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1735910..1736140_NEGATIVE 272 96 52 213 175 smit:SMT_2002|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1924405..1924635_NEGATIVE 272 96 52 213 175 smit:SMT_1942|5end_zinc_metalloprotease_ZmpB,_truncated_1877882..1878112_POSITIVE 270 59 18 211 164 smit:SMT_452|5end_phosphomethylpyrimidine_kinase_390568..390798_NEGATIVE 269 67 23 151 94 smit:SMT_587|5end_ATP_synthase_epsilon_chain_503950..504180_POSITIVE 268 61 28 146 115 smit:SMT_1605|5end_hypothetical_protein_1595406..1595636_POSITIVE 255 77 41 166 128 smit:SMT_178|5end_50S_ribosomal_protein_L29_119161..119391_POSITIVE 255 95 51 165 108 smit:SMT_104|5end_DNA_repair_protein_49623..49853_POSITIVE 250 50 1 89 42 smit:SMT_846|5end_hypothetical_protein_792769..792999_NEGATIVE 248 94 51 89 38 smit:SMT_1634|5end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1621074..1621304_POSITIVE 248 98 51 75 15 smit:SMT_784|5end_hypothetical_protein_696298..696528_NEGATIVE 246 99 51 217 179 smit:SMT_1885|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1840057..1840287_NEGATIVE 246 88 46 163 114 smit:SMT_1552|5end_RNA_binding_protein_1535119..1535349_POSITIVE 245 77 38 168 123 smit:SMT_1380|5end_pyrroline-5-carboxylate_reductase_1358464..1358694_NEGATIVE 244 59 11 212 160 smit:SMT_1592|5end_putative_hemolysin_1579655..1579885_POSITIVE 243 79 39 60 3 smit:SMT_1907|5end_phosphate-binding_protein_1854105..1854335_POSITIVE 243 50 2 73 23 smit:SMT_1787|5end_phosphoribosylformylglycinamidine_synthase_1764915..1765145_NEGATIVE 243 50 2 73 23 smit:SMT_1196|5end_phosphoribosylformylglycinamidine_synthase_1158637..1158867_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 269 67 23 140 83 smit:SMT_586|3end_ATP_synthase_F1,_beta_subunit_504019..504169_POSITIVE 269 65 28 134 89 smit:SMT_460|3end_6-phospho-beta-glucosidase_399338..399488_POSITIVE 265 88 43 143 93 smit:SMT_1443|3end_23S_rRNA_m(5)U_1939_methyltransferase_1426503..1426653_NEGATIVE 261 84 44 109 63 smit:SMT_1717|3end_DNA-3-methyladenine_glycosylase_I_1703711..1703861_NEGATIVE 248 98 51 66 6 smit:SMT_785|3end_hypothetical_protein_696307..696457_NEGATIVE 246 88 42 107 54 smit:SMT_1836|3end_cytidine/deoxycytidylate_deaminase_family_protein_1804100..1804250_NEGATIVE 245 70 36 101 68 smit:SMT_1604|3end_K05833_putative_ABC_transport_system_ATP-binding_protein_1595163..1595313_POSITIVE 239 79 31 47 3 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 237 96 52 79 40 smit:SMT_230|3end_hypothetical_protein_predicted_by_Glimmer/Critica_165666..165816_NEGATIVE 233 90 42 84 25 smit:SMT_1041|3end_K07586_hypothetical_protein_984164..984314_POSITIVE 228 88 42 148 98 smit:SMT_1760|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1735743..1735893_NEGATIVE 228 60 17 92 43 smit:SMT_1612|3end_K06024_segregation_and_condensation_protein_B_1600701..1600851_POSITIVE 228 66 30 63 30 smit:SMT_1260|3end_hypothetical_protein_1226664..1226814_POSITIVE 227 100 52 92 53 smit:SMT_386|3end_branched-chain_amino_acid_transport_system_II_carrier_protein_321002..321152_POSITIVE 221 49 5 71 20 smit:SMT_2071|3end_phosphoenolpyruvate_carboxylase_1975594..1975744_NEGATIVE 221 83 48 55 18 smit:SMT_1575|3end_ribokinase_1569055..1569205_POSITIVE 220 100 66 88 56 smit:SMT_323|3end_amino_acid_transport_ATP-binding_protein_261519..261669_NEGATIVE 219 90 45 56 11 smit:SMT_313|3end_3R-hydroxymyristoyl_ACP_dehydrase_254345..254495_POSITIVE 219 73 36 59 27 smit:SMT_232|3end_DNA_polymerase_III,_alpha_subunit,_Gram-positive_type_172717..172867_POSITIVE 216 90 41 75 25 smit:SMT_302|3end_K07444_putative_N6-adenine-specific_DNA_methylase_245319..245469_POSITIVE