Origin IGS: tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagttattccctccgattaattatataaatctaatatcatttatccttactcaagaaaaatcaagattagcttaggaagcgagctgcgagcataactgaggttagctaaagtgagctgacgacagattatcttgatttttgaagcgta Mask Tandem Repeat Region ================================================ tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Find is-nt database================================================ Query_seq: SMT_1830:SMT_1831|SMT_1830:SMT_1831:galactose-6-phosphate isomerase:galactose-6-phosphate isomerase:->->:1799904..1800051 148 tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1830:SMT_1831|SMT_1830:SMT_1831:galactose-6-phosphate isomerase:galactose-6-phosphate isomerase:->->:1799904..1800051 148 tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1830:SMT_1831|SMT_1830:SMT_1831:galactose-6-phosphate isomerase:galactose-6-phosphate isomerase:->->:1799904..1800051 148 tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Predict ORF larger than 30AA ================================================ tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta 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================================================ tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 42 HP_score: -2.8 Tail_Score: -2.89844 Start: 24 End: 53 Full_Region: gagctgcgagcataa ctgaggttagct aaagtg agctgacgacag attatcttgattttt .......................ctgaggttagctaaagtgagctgacgacag............................................................................................... Find igs database================================================ Query_seq: SMT_1830:SMT_1831|SMT_1830:SMT_1831:galactose-6-phosphate isomerase:galactose-6-phosphate isomerase:->->:1799904..1800051 148 tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Intra-Species Hit: Count: 1 Min: 1 Max: 148 Len: 148 Subject: smit_SMT_1830_SMT_1831|galactose-6-phosphate isomerase:galactose-6-phosphate isomerase|POSITIVE:POSITIVE|[1799904,1800051]|148 HSP 1 e-value: 8.0E-79 bit: 293.0 Len: 148 Query Start:1 Query End:148 Subject Strand: POSITIVE Subject Start: 1 Subject End: 148 tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta tacgcttcaaaaatcaagataatctgtcgtcagctcactttagctaacctcagttatgctcgcagctcgcttcctaagctaatcttgatttttcttgagtaaggataaatgatattagatttatataattaatcggagggaataacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACGCUUCAAAAAUCAAGAUAAUCUGUCGUCAGCUCACUUUAGCUAACCUCAGUUAUGCUCGCAGCUCGCUUCCUAAGCUAAUCUUGAUUUUUCUUGAGUAAGGAUAAAUGAUAUUAGAUUUAUAUAAUUAAUCGGAGGGAAUAACUA ..(.((((.(((((((((((...(((..((.((((......)))).))..)))....((.....))..(((.....)))..)))))))))))...(((((...((((.....))))..)))))...........)))).)........ (-27.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUAUUCCCUCCGAUUAAUUAUAUAAAUCUAAUAUCAUUUAUCCUUACUCAAGAAAAAUCAAGAUUAGCUUAGGAAGCGAGCUGCGAGCAUAACUGAGGUUAGCUAAAGUGAGCUGACGACAGAUUAUCUUGAUUUUUGAAGCGUA ((((((.((.....)).))))))................................((((((((((((...((..(..(((..(((...(((.((((....)))))))..)))..)))..)...))...))))))))))))........ (-31.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 75 31 209 162 smit:SMT_1645|5end_hypothetical_protein_1631738..1631968_POSITIVE 316 70 25 63 5 smit:SMT_236|5end_ribosomal_small_subunit_pseudouridine_synthase_A_174625..174855_POSITIVE 310 49 4 50 6 smit:SMT_1047|5end_chaperonin,_10_kDa_988090..988320_NEGATIVE 310 49 4 89 45 smit:SMT_1045|5end_cochaperonin_GroES_987582..987812_NEGATIVE 307 80 31 74 25 smit:SMT_1785|5end_phenylalanyl-tRNA_synthetase_beta_chain_1763277..1763507_NEGATIVE 307 70 21 229 179 smit:SMT_1026|5end_sucrose_phosphorylase_962324..962554_NEGATIVE 302 70 23 189 142 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 301 87 41 195 142 smit:SMT_1956|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1889710..1889940_NEGATIVE 301 109 62 108 57 smit:SMT_867|5end_hypothetical_protein_816316..816546_POSITIVE 297 70 21 67 4 smit:SMT_302|5end_K07444_putative_N6-adenine-specific_DNA_methylase_244808..245038_POSITIVE 296 70 23 60 7 smit:SMT_245|5end_hypothetical_protein_predicted_by_Glimmer/Critica_181964..182194_NEGATIVE 296 70 23 167 114 smit:SMT_244|5end_PTS_system,_mannose-specific_IIAB_component_181857..182087_NEGATIVE 295 70 26 190 140 smit:SMT_2042|5end_K04077_chaperonin_GroEL_(Hsp60)_1953889..1954119_NEGATIVE 295 79 31 203 161 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 292 88 48 212 170 smit:SMT_1471|5end_hypothetical_protein_1453933..1454163_NEGATIVE 289 79 31 111 67 smit:SMT_908|5end_hypothetical_protein_857230..857460_NEGATIVE 289 75 31 151 104 smit:SMT_380|5end_hypothetical_protein_316376..316606_POSITIVE 289 75 31 151 104 smit:SMT_371|5end_hypothetical_protein_305248..305478_POSITIVE 288 100 58 96 53 smit:SMT_1911|5end_hypothetical_protein_1857614..1857844_POSITIVE 285 87 45 140 95 smit:SMT_1729|5end_exodeoxyribonuclease_VII_small_subunit_1714566..1714796_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 80 31 116 67 smit:SMT_1786|3end_phenylalanyl-tRNA_synthetase_beta_chain_1763235..1763385_NEGATIVE 302 70 28 47 2 smit:SMT_451|3end_thiamine-phosphate_pyrophosphorylase_389647..389797_POSITIVE 296 70 22 142 80 smit:SMT_1034|3end_K05896_segregation_and_condensation_protein_A_976768..976918_NEGATIVE 295 70 26 66 16 smit:SMT_2043|3end_putative_mucus_binding_protein_1954013..1954163_NEGATIVE 295 70 24 51 3 smit:SMT_1625|3end_DNA_polymerase_IV_1615066..1615216_POSITIVE 290 100 52 89 40 smit:SMT_1670|3end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_1659295..1659445_POSITIVE 290 100 52 68 19 smit:SMT_1068|3end_ATP-dependent_DNA_helicase_RecG_1008986..1009136_POSITIVE 290 100 52 51 2 smit:SMT_916|3end_3-hydroxy-3-methylglutaryl-CoA_reductase_868730..868880_NEGATIVE 289 79 31 118 74 smit:SMT_909|3end_type_I_restriction_enzyme_M_protein_857223..857373_NEGATIVE 289 75 31 151 104 smit:SMT_379|3end_acetyltransferase,_GNAT_family_316456..316606_POSITIVE 289 75 31 151 104 smit:SMT_370|3end_acetyltransferase,_GNAT_family_305328..305478_POSITIVE 288 100 58 56 13 smit:SMT_1910|3end_pyruvate-formate_lyase_activating_enzyme_1857654..1857804_POSITIVE 284 80 31 63 23 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 280 107 61 46 1 smit:SMT_1356|3end_fibronectin-binding_protein-like_protein_A_1334269..1334419_POSITIVE 279 69 22 114 62 smit:SMT_1443|3end_23S_rRNA_m(5)U_1939_methyltransferase_1426503..1426653_NEGATIVE 275 80 31 79 27 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 269 107 62 98 50 smit:SMT_1075|3end_hypothetical_protein_1013870..1014020_POSITIVE 265 98 51 135 92 smit:SMT_2112|3end_transcription-repair_coupling_factor_2000373..2000523_NEGATIVE 262 69 26 135 86 smit:SMT_1852|3end_1,4-alpha-glucan_branching_enzyme_1816467..1816617_NEGATIVE 259 70 29 52 8 smit:SMT_1789|3end_hypothetical_protein_1765511..1765661_POSITIVE