Origin IGS: ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcaaaaaggacttgagtaatgaactcaggccnnnnnttaattaattaannnnntttatcctcttatctttctacagtgttattgggggatggattctggtttatctaggcattgagtttggaaaa Mask Tandem Repeat Region ================================================ ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Find is-nt database================================================ Query_seq: SMT_474:SMT_475|SMT_474:SMT_475:K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family:<-<-:411985..412109 125 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_474:SMT_475|SMT_474:SMT_475:K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family:<-<-:411985..412109 125 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_474:SMT_475|SMT_474:SMT_475:K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family:<-<-:411985..412109 125 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Predict ORF larger than 30AA ================================================ ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga 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================================================ ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_474:SMT_475|SMT_474:SMT_475:K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family:<-<-:411985..412109 125 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Intra-Species Hit: Count: 4 Min: 1 Max: 125 Len: 125 Subject: smit_SMT_474_SMT_475|K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family|NEGATIVE:NEGATIVE|[411985,412109]|125 HSP 1 e-value: 1.0E-43 bit: 176.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnnncctgagttcattactcaagtcctttttga ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaannnnnttaattaattaannnnnggcctgagttcattactcaagtcctttttga Subject: smit_SMT_475_SMT_476|K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family|NEGATIVE:NEGATIVE|[413088,413402]|315 HSP 1 e-value: 2.0E-33 bit: 143.0 Len: 72 Query Start:1 Query End:72 Subject Strand: POSITIVE Subject Start: 1 Subject End: 72 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaa..................................................... ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaa..................................................... HSP 2 e-value: 7.0E-8 bit: 58.0 Len: 29 Query Start:97 Query End:125 Subject Strand: POSITIVE Subject Start: 287 Subject End: 315 ................................................................................................cctgagttcattactcaagtcctttttga ................................................................................................cctgagttcattactcaagtcctttttga Subject: smit_SMT_473_SMT_474|K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family|NEGATIVE:NEGATIVE|[410705,411009]|305 HSP 1 e-value: 2.0E-33 bit: 143.0 Len: 72 Query Start:1 Query End:72 Subject Strand: POSITIVE Subject Start: 1 Subject End: 72 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaa..................................................... ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaa..................................................... HSP 2 e-value: 7.0E-8 bit: 58.0 Len: 29 Query Start:97 Query End:125 Subject Strand: POSITIVE Subject Start: 271 Subject End: 299 ................................................................................................cctgagttcattactcaagtcctttttga ................................................................................................cctgagttcattactcaagtcctttttga Subject: smit_SMT_471_SMT_472|K03308 neurotransmitter:Na+ symporter, NSS family:K03308 neurotransmitter:Na+ symporter, NSS family|NEGATIVE:NEGATIVE|[408442,408702]|261 HSP 1 e-value: 2.0E-33 bit: 143.0 Len: 72 Query Start:1 Query End:72 Subject Strand: POSITIVE Subject Start: 1 Subject End: 72 ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaa..................................................... ttttccaaactcaatgcctagataaaccagaatccatcccccaataacactgtagaaagataagaggataaa..................................................... HSP 2 e-value: 7.0E-8 bit: 58.0 Len: 29 Query Start:97 Query End:125 Subject Strand: POSITIVE Subject Start: 233 Subject End: 261 ................................................................................................cctgagttcattactcaagtcctttttga ................................................................................................cctgagttcattactcaagtcctttttga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCCAAACUCAAUGCCUAGAUAAACCAGAAUCCAUCCCCCAAUAACACUGUAGAAAGAUAAGAGGAUAAANNNNNUUAAUUAAUUAANNNNNGGCCUGAGUUCAUUACUCAAGUCCUUUUUGA .......((((((..(((..(((........))).((((..........................)))).........................))).))))))......(((((.....))))) (-10.87) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAAAAAGGACUUGAGUAAUGAACUCAGGCCNNNNNUUAAUUAAUUAANNNNNUUUAUCCUCUUAUCUUUCUACAGUGUUAUUGGGGGAUGGAUUCUGGUUUAUCUAGGCAUUGAGUUUGGAAAA .......((.(((((((.....)))))))))......................((((((((((.......(....).......))))))))))..........(((((((.....)))))))... (-24.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 883 60 11 151 102 smit:SMT_481|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_418240..418470_NEGATIVE 883 60 11 151 102 smit:SMT_480|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_417433..417663_NEGATIVE 883 60 11 151 102 smit:SMT_474|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_411894..412124_NEGATIVE 883 60 11 151 102 smit:SMT_473|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_410614..410844_NEGATIVE 883 60 11 151 102 smit:SMT_471|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_408351..408581_NEGATIVE 506 120 78 225 183 smit:SMT_472|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_409494..409724_NEGATIVE 463 120 78 153 112 smit:SMT_470|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_407303..407533_NEGATIVE 403 115 78 231 194 smit:SMT_469|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_405812..406042_NEGATIVE 243 55 15 76 28 smit:SMT_521|5end_K02005_HlyD_family_secretion_protein_445566..445796_POSITIVE 236 72 32 173 135 smit:SMT_851|5end_conserved_hypothetical_protein,_translation_initiation_inhibitor_protein_797446..797676_NEGATIVE 236 43 5 215 174 smit:SMT_191|5end_adenylate_kinase_125745..125975_POSITIVE 227 46 5 204 162 smit:SMT_1192|5end_phosphoribosylaminoimidazolecarboxamide_formyltransferase_/_IMP_cyclohydrolase_1151406..1151636_NEGATIVE 224 48 1 92 35 smit:SMT_1938|5end_zinc_metalloprotease_ZmpB,_putative_1875374..1875604_POSITIVE 221 56 16 116 63 smit:SMT_826|5end_hypothetical_protein_750022..750252_NEGATIVE 220 32 8 228 203 smit:SMT_1835|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1803894..1804124_POSITIVE 218 45 6 229 192 smit:SMT_552|5end_DNA_polymerase_III,_gamma_and_tau_subunits_469445..469675_POSITIVE 218 67 32 117 81 smit:SMT_146|5end_sugar_transport_system_permease_protein_96664..96894_POSITIVE 218 43 1 179 138 smit:SMT_109|5end_beta-galactosidase_53925..54155_POSITIVE 216 48 5 107 70 smit:SMT_607|5end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_520119..520349_POSITIVE 216 57 12 140 83 smit:SMT_282|5end_hypothetical_protein_224866..225096_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 506 120 78 85 43 smit:SMT_476|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_413313..413463_NEGATIVE 506 120 78 85 43 smit:SMT_473|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_409634..409784_NEGATIVE 506 120 78 85 43 smit:SMT_470|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_405963..406113_NEGATIVE 496 120 78 85 42 smit:SMT_472|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_408613..408763_NEGATIVE 463 120 78 79 38 smit:SMT_474|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_410920..411070_NEGATIVE 463 120 78 85 44 smit:SMT_471|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_407371..407521_NEGATIVE 439 120 95 85 60 smit:SMT_469|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_404931..405081_NEGATIVE 439 120 95 85 60 smit:SMT_462|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_400414..400564_NEGATIVE 250 58 16 54 9 smit:SMT_808|3end_hypothetical_protein_predicted_by_Glimmer/Critica_717897..718047_NEGATIVE 245 48 10 74 30 smit:SMT_1925|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_1867458..1867608_POSITIVE 236 43 5 65 24 smit:SMT_190|3end_preprotein_translocase,_SecY_subunit_125675..125825_POSITIVE 224 48 1 60 3 smit:SMT_1937|3end_glycosyl_transferase,_family_2_1875422..1875572_POSITIVE 220 44 6 76 36 smit:SMT_1165|3end_sensor_protein_CiaH_1110486..1110636_NEGATIVE 218 43 1 47 6 smit:SMT_108|3end_hypothetical_protein_53873..54023_POSITIVE 217 53 14 140 87 smit:SMT_1439|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1423262..1423412_NEGATIVE 216 48 5 55 18 smit:SMT_606|3end_cytochrome_c-type_biogenesis_protein_CcdA_520147..520297_POSITIVE 213 49 3 151 112 smit:SMT_461|3end_mannose-6-phosphate_isomerase_400403..400553_POSITIVE 210 46 10 80 38 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 208 43 10 151 121 smit:SMT_216|3end_Holliday_junction_DNA_helicase_RuvB_149335..149485_POSITIVE 205 44 17 47 16 smit:SMT_1862|3end_K02027_multiple_sugar_transport_system_substrate-binding_protein_1825460..1825610_POSITIVE