Origin IGS: aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtgttgaaaggaggatactgcctccttctctatttgacatagatatttttttaggatataatttaatccgaaatcagactaaaagagatgtaaggaattatt Mask Tandem Repeat Region ================================================ aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Find is-nt database================================================ Query_seq: SMT_731:SMT_732|SMT_731:SMT_732:hypothetical protein predicted by Glimmer/Critica:K07467 phage replication initiation protein:<-<-:638948..639049 102 aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_731:SMT_732|SMT_731:SMT_732:hypothetical protein predicted by Glimmer/Critica:K07467 phage replication initiation protein:<-<-:638948..639049 102 aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_731:SMT_732|SMT_731:SMT_732:hypothetical protein predicted by Glimmer/Critica:K07467 phage replication initiation protein:<-<-:638948..639049 102 aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Predict ORF larger than 30AA ================================================ aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac 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: 93 Start: 41 End: 70 ........................................TTTGACATAGATATTTTTTTAGGATATAAT................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_731:SMT_732|SMT_731:SMT_732:hypothetical protein predicted by Glimmer/Critica:K07467 phage replication initiation protein:<-<-:638948..639049 102 aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: smit_SMT_731_SMT_732|hypothetical protein predicted by Glimmer/Critica:K07467 phage replication initiation protein|NEGATIVE:NEGATIVE|[638948,639049]|102 HSP 1 e-value: 5.0E-39 bit: 161.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 aataattccttacatctcttttagtctgatttcggattaaattatatcctnnnnnnntatctatgtcaaatagagaaggaggcagtatcctcctttcaacac aataattccttacatctcttttagtctgatttcggattaaattatatcctaaaaaaatatctatgtcaaatagagaaggaggcagtatcctcctttcaacac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAAUUCCUUACAUCUCUUUUAGUCUGAUUUCGGAUUAAAUUAUAUCCUAAAAAAAUAUCUAUGUCAAAUAGAGAAGGAGGCAGUAUCCUCCUUUCAACAC ...................(((((((((....)))))))))..................(((((.....)))))((((((((......))))))))...... (-20.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGUUGAAAGGAGGAUACUGCCUCCUUCUCUAUUUGACAUAGAUAUUUUUUUAGGAUAUAAUUUAAUCCGAAAUCAGACUAAAAGAGAUGUAAGGAAUUAUU ((((..((((((((......))))))......))..))))..((((((((((.((((........))))............))))))))))........... (-19.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 807 100 51 191 142 smit:SMT_731|5end_hypothetical_protein_predicted_by_Glimmer/Critica_638857..639087_NEGATIVE 275 98 70 162 132 smit:SMT_976|5end_hypothetical_protein_925183..925413_NEGATIVE 263 93 68 209 185 smit:SMT_1728|5end_exodeoxyribonuclease_VII_large_subunit_1713248..1713478_POSITIVE 259 96 60 141 105 smit:SMT_1513|5end_hypothetical_protein_1495582..1495812_NEGATIVE 240 85 41 127 87 smit:SMT_1449|5end_K08591_putative_membrane_protein_1431937..1432167_POSITIVE 231 46 5 132 86 smit:SMT_1737|5end_peptidyl-prolyl_cis-trans_isomerase_1719862..1720092_POSITIVE 227 100 58 138 93 smit:SMT_850|5end_hypothetical_protein_797014..797244_NEGATIVE 226 96 62 144 100 smit:SMT_236|5end_ribosomal_small_subunit_pseudouridine_synthase_A_174625..174855_POSITIVE 225 96 70 175 150 smit:SMT_1217|5end_hypothetical_protein_1176603..1176833_NEGATIVE 223 93 61 101 66 smit:SMT_1025|5end_hypothetical_protein_960557..960787_NEGATIVE 219 100 56 73 23 smit:SMT_1276|5end_rod_shape-determining_protein_MreD_1239412..1239642_POSITIVE 219 50 5 146 97 smit:SMT_945|5end_cytidylate_kinase_895908..896138_NEGATIVE 215 92 60 51 14 smit:SMT_1639|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_1625819..1626049_NEGATIVE 213 91 64 228 196 smit:SMT_1677|5end_transcription-repair_coupling_factor_1662112..1662342_NEGATIVE 213 99 64 78 35 smit:SMT_1351|5end_dephospho-CoA_kinase_1329817..1330047_NEGATIVE 212 97 63 192 160 smit:SMT_1042|5end_hypothetical_cytosolic_protein_984972..985202_NEGATIVE 212 96 68 201 176 smit:SMT_773|5end_UDP-N-acetylenolpyruvoylglucosamine_reductase_684365..684595_NEGATIVE 206 50 9 87 44 smit:SMT_647|5end_DNA_gyrase,_A_subunit_554170..554400_NEGATIVE 205 97 55 108 59 smit:SMT_999|5end_hypothetical_protein_predicted_by_Glimmer/Critica_941642..941872_NEGATIVE 204 96 56 143 87 smit:SMT_1806|5end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781229..1781459_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 98 70 93 63 smit:SMT_977|3end_conserved_hypothetical_protein,_Rrf2_family_protein_925252..925402_NEGATIVE 263 93 68 82 58 smit:SMT_1727|3end_uridine_kinase_1713201..1713351_POSITIVE 231 46 5 52 6 smit:SMT_1736|3end_acetyltransferase,_GNAT_family_1719862..1720012_POSITIVE 227 100 58 86 41 smit:SMT_851|3end_conserved_hypothetical_protein,_translation_initiation_inhibitor_protein_797066..797216_NEGATIVE 225 96 70 90 65 smit:SMT_1218|3end_DNA_polymerase_I_1176688..1176838_NEGATIVE 219 100 56 73 23 smit:SMT_1275|3end_rod_shape-determining_protein_MreC_1239492..1239642_POSITIVE 219 50 5 136 87 smit:SMT_946|3end_hypothetical_protein_895918..896068_NEGATIVE 213 99 64 78 35 smit:SMT_1352|3end_formamidopyrimidine-DNA_glycosylase_1329817..1329967_NEGATIVE 213 98 64 84 36 smit:SMT_355|3end_hypothetical_protein_292313..292463_POSITIVE 212 97 63 54 22 smit:SMT_1043|3end_chaperonin_GroEL_985110..985260_NEGATIVE 212 96 68 87 62 smit:SMT_774|3end_hypothetical_protein_684479..684629_NEGATIVE 209 96 60 73 36 smit:SMT_1220|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1180509..1180659_NEGATIVE 204 96 56 75 19 smit:SMT_1805|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1781241..1781391_POSITIVE 204 96 56 75 19 smit:SMT_1634|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1621438..1621588_POSITIVE 200 94 74 23 1 smit:SMT_1084|3end_hypothetical_protein_1021326..1021476_NEGATIVE 199 98 72 61 39 smit:SMT_1505|3end_purine-nucleoside_phosphorylase_1487805..1487955_NEGATIVE 198 93 65 79 45 smit:SMT_1778|3end_ATP-dependent_RNA_helicase_1753611..1753761_NEGATIVE 193 95 56 76 25 smit:SMT_1412|3end_hypothetical_protein_1396411..1396561_POSITIVE 193 98 59 104 69 smit:SMT_1287|3end_50S_ribosomal_protein_L9_1250890..1251040_POSITIVE 192 50 5 108 70 smit:SMT_1726|3end_tRNA_pseudouridine_synthase_B_1712453..1712603_POSITIVE