Origin IGS: atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agtcgcaattttcggagctcccgttatggaaccacargaaatagagaacggatatctctacaggtcacatcctctcgcaaccactcttgatggtcgagtcatctgccaamcgktgaatactgttcacttggcaagacgctctacatgctcactcccactcagaaatacgkgtcattgcgcagnnnnnttaattaattaannnnnttaggagtttaactattggtctgaaaaatcgcaatgggggttctaaactaggctttattctagcatctgctggttcagctatcggacttggagccgtttggaaatttccctat Mask Tandem Repeat Region ================================================ atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Find is-nt database================================================ Query_seq: SMT_462:SMT_463|SMT_462:SMT_463:K03308 neurotransmitter:Na+ symporter, NSS family:para-aminobenzoate synthetase component I / 4-amino-4-deoxychorismate lyase:<-->:401749..402065 317 atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_462:SMT_463|SMT_462:SMT_463:K03308 neurotransmitter:Na+ symporter, NSS family:para-aminobenzoate synthetase component I / 4-amino-4-deoxychorismate lyase:<-->:401749..402065 317 atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_462:SMT_463|SMT_462:SMT_463:K03308 neurotransmitter:Na+ symporter, NSS family:para-aminobenzoate synthetase component I / 4-amino-4-deoxychorismate lyase:<-->:401749..402065 317 atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 32 End: 127 ............................... M A E P A D A R I K P S L E P P L R F F R P I V K L L X X L I N .............................................................................................................................................................................................. Protein_Len: 30 Strand: - Start: 126 End: 215 ............................................................................................................................. N X X X R L S X Y K Q T P T L M Y L T K G L S C Y E X X P M ...................................................................................................... Protein_Len: 60 Strand: - Start: 122 End: 310 ......................................................................................................................... X X A C H X T N R L P L S C T S R R A L H V T N X X Q C I V R G D L T T A L P H S R Y L Y G N E I E Q P E M V P A G F M ....... Protein_Len: 41 Strand: - Start: 1 End: 123 Y P F K W V A G L G I A S G A S A L I F G L K S G G N R N K L G I T L S R X X X M .................................................................................................................................................................................................. atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact 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================================================ atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_462:SMT_463|SMT_462:SMT_463:K03308 neurotransmitter:Na+ symporter, NSS family:para-aminobenzoate synthetase component I / 4-amino-4-deoxychorismate lyase:<-->:401749..402065 317 atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Intra-Species Hit: Count: 1 Min: 1 Max: 317 Len: 317 Subject: smit_SMT_462_SMT_463|K03308 neurotransmitter:Na+ symporter, NSS family:para-aminobenzoate synthetase component I / 4-amino-4-deoxychorismate lyase|NEGATIVE:POSITIVE|[401749,402065]|317 HSP 1 e-value: 1.0E-158 bit: 558.0 Len: 317 Query Start:1 Query End:317 Subject Strand: POSITIVE Subject Start: 1 Subject End: 317 atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact atagggaaatttccaaacggctccaagtccgatagctgaaccagcagatgctagaataaagcctagtttagaacccccattgcgatttttcagaccaatagttaaactcctaannnnnttaattaattaannnnnctgcgcaatgacmcgtatttctgagtgggagtgagcatgtagagcgtcttgccaagtgaacagtattcamcgkttggcagatgactcgaccatcaagagtggttgcgagaggatgtgacctgtagagatatccgttctctatttcytgtggttccataacgggagctccgaaaattgcgact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAGGGAAAUUUCCAAACGGCUCCAAGUCCGAUAGCUGAACCAGCAGAUGCUAGAAUAAAGCCUAGUUUAGAACCCCCAUUGCGAUUUUUCAGACCAAUAGUUAAACUCCUAANNNNNUUAAUUAAUUAANNNNNCUGCGCAAUGACMCGUAUUUCUGAGUGGGAGUGAGCAUGUAGAGCGUCUUGCCAAGUGAACAGUAUUCAMCGKUUGGCAGAUGACUCGACCAUCAAGAGUGGUUGCGAGAGGAUGUGACCUGUAGAGAUAUCCGUUCUCUAUUUCYUGUGGUUCCAUAACGGGAGCUCCGAAAAUUGCGACU ...(((...........((((.....).)))...((((...))))....(((((........)))))........))).(((((((((((..(((.....)))...(((((........................((.((((((.((.......(((..((((..(....).....((((((((.(((((.((((.....))))....)))))))))).)))..))))..))))).))))))))...(((..(((.(((((((.......))))))).......)))..)))...)))))....))))))))))).. (-75.61) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUCGCAAUUUUCGGAGCUCCCGUUAUGGAACCACARGAAAUAGAGAACGGAUAUCUCUACAGGUCACAUCCUCUCGCAACCACUCUUGAUGGUCGAGUCAUCUGCCAAMCGKUGAAUACUGUUCACUUGGCAAGACGCUCUACAUGCUCACUCCCACUCAGAAAUACGKGUCAUUGCGCAGNNNNNUUAAUUAAUUAANNNNNUUAGGAGUUUAACUAUUGGUCUGAAAAAUCGCAAUGGGGGUUCUAAACUAGGCUUUAUUCUAGCAUCUGCUGGUUCAGCUAUCGGACUUGGAGCCGUUUGGAAAUUUCCCUAU ....((..((((((((.(....((((.................((((..((((((((....))))...))))))))......((((((((..((.((((..((((((((....(((((...))))).))))).))).)))).)).(((.((.....((.(........).))...)).))).......................)))))))).))))....).))))))))...)).(((((((((((((((..(((((((...((((....))))((((.......)))).)))))))))))))))...))))))) (-70.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 970 50 1 141 92 smit:SMT_479|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_416656..416886_NEGATIVE 970 50 1 141 92 smit:SMT_462|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_401658..401888_NEGATIVE 955 60 11 55 6 smit:SMT_470|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_407303..407533_NEGATIVE 884 70 21 65 16 smit:SMT_482|5end_hypothetical_protein_predicted_by_Glimmer/Critica_418536..418766_NEGATIVE 348 270 226 46 1 smit:SMT_382|5end_valyl-tRNA_synthetase_317706..317936_POSITIVE 333 66 21 207 156 smit:SMT_1043|5end_chaperonin_GroEL_985766..985996_NEGATIVE 326 258 221 221 172 smit:SMT_423|5end_sensory_transduction_protein_kinase_366012..366242_POSITIVE 325 54 19 117 83 smit:SMT_229|5end_mechanosensitive_ion_channel_165623..165853_NEGATIVE 317 69 22 61 19 smit:SMT_210|5end_acetyltransferase,_GNAT_family_143380..143610_POSITIVE 314 66 24 73 34 smit:SMT_1453|5end_K07335_basic_membrane_protein_A_and_related_proteins_1437407..1437637_NEGATIVE 314 200 152 69 21 smit:SMT_140|5end_NUDIX_family_hydrolase_90990..91220_POSITIVE 311 47 4 193 151 smit:SMT_1006|5end_6-pyruvoyl_tetrahydrobiopterin_synthase,_putative_946599..946829_POSITIVE 308 260 212 68 4 smit:SMT_2083|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1982411..1982641_POSITIVE 308 247 206 116 82 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 307 260 211 71 20 smit:SMT_1025|5end_hypothetical_protein_960557..960787_NEGATIVE 305 270 222 79 33 smit:SMT_1973|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1905438..1905668_NEGATIVE 305 87 41 59 21 smit:SMT_1029|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_965632..965862_NEGATIVE 305 244 209 157 115 smit:SMT_219|5end_phosphatidate_cytidylyltransferase_150922..151152_POSITIVE 302 265 235 56 15 smit:SMT_1015|5end_galactose_operon_repressor_951938..952168_POSITIVE 301 64 21 48 5 smit:SMT_1530|5end_K07456_DNA_mismatch_repair_protein_MutS2_1515346..1515576_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 935 70 21 52 3 smit:SMT_480|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_416765..416915_NEGATIVE 549 113 75 37 1 smit:SMT_471|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_407371..407521_NEGATIVE 516 34 1 151 118 smit:SMT_482|3end_hypothetical_protein_predicted_by_Glimmer/Critica_418414..418564_NEGATIVE 340 47 19 47 21 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 325 54 19 74 40 smit:SMT_230|3end_hypothetical_protein_predicted_by_Glimmer/Critica_165666..165816_NEGATIVE 317 69 22 49 7 smit:SMT_209|3end_acetyltransferase,_GNAT_family_143448..143598_POSITIVE 314 200 152 57 9 smit:SMT_139|3end_hypothetical_protein_91058..91208_POSITIVE 305 244 209 148 106 smit:SMT_218|3end_undecaprenyl_pyrophosphate_synthetase_150993..151143_POSITIVE 291 253 213 42 3 smit:SMT_1897|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1848766..1848916_NEGATIVE 287 251 211 49 8 smit:SMT_1162|3end_ATP-dependent_DNA_helicase_1106445..1106595_NEGATIVE 286 259 211 135 89 smit:SMT_1441|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1424887..1425037_NEGATIVE 286 67 22 84 37 smit:SMT_750|3end_3-phosphoshikimate_1-carboxyvinyltransferase_653964..654114_NEGATIVE 283 256 212 57 14 smit:SMT_2075|3end_phosphoribosylamine--glycine_ligase_1977769..1977919_NEGATIVE 278 56 18 151 104 smit:SMT_1203|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1164221..1164371_NEGATIVE 277 217 180 135 101 smit:SMT_1856|3end_polypeptide_deformylase_1820999..1821149_POSITIVE 277 217 180 135 101 smit:SMT_835|3end_polypeptide_deformylase_777124..777274_NEGATIVE 276 260 214 105 59 smit:SMT_1631|3end_phosphopantothenoylcysteine_synthase/decarboxylase_1618204..1618354_NEGATIVE 275 260 216 140 103 smit:SMT_1538|3end_two-component_response_regulator_YvqC_1522669..1522819_NEGATIVE 275 279 233 96 28 smit:SMT_754|3end_3-dehydroquinate_synthase_657977..658127_NEGATIVE 275 110 61 86 28 smit:SMT_681|3end_choline_kinase_589952..590102_NEGATIVE