Origin IGS: tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acttgatttccctagaaaatacggtaaaaggtcaataaatatacttttatagtataacaaaaaaaagcctaaaaggctttgattttgtctagaagctgagga Mask Tandem Repeat Region ================================================ tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Find is-nt database================================================ Query_seq: SMT_553:SMT_554|SMT_553:SMT_554:hypothetical protein:K09013 Fe-S cluster assembly ATP-binding protein:->->:471463..471564 102 tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_553:SMT_554|SMT_553:SMT_554:hypothetical protein:K09013 Fe-S cluster assembly ATP-binding protein:->->:471463..471564 102 tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_553:SMT_554|SMT_553:SMT_554:hypothetical protein:K09013 Fe-S cluster assembly ATP-binding protein:->->:471463..471564 102 tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Predict ORF larger than 30AA ================================================ tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt 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================================================ tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -6.8 Tail_Score: -4.30161 Start: 26 End: 36 Full_Region: gtataacaaaaaaaa gcct aaa aggc tttgattttgtctag .........................gcctaaaaggc.................................................................. TransTerm Strand: + Conf: 58 HP_score: -3.8 Tail_Score: -4.24711 Start: 47 End: 63 Full_Region: TAGGCTTTTTTTTGT TATACT ATAAA AGTATA TTTATTGACCTTTTA ..............................................TATACTATAAAAGTATA....................................... Find igs database================================================ Query_seq: SMT_553:SMT_554|SMT_553:SMT_554:hypothetical protein:K09013 Fe-S cluster assembly ATP-binding protein:->->:471463..471564 102 tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: smit_SMT_553_SMT_554|hypothetical protein:K09013 Fe-S cluster assembly ATP-binding protein|POSITIVE:POSITIVE|[471463,471564]|102 HSP 1 e-value: 3.0E-37 bit: 155.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 tcctcagcttctagacaaaatcaaagccttttaggcnnnnnnnngttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt tcctcagcttctagacaaaatcaaagccttttaggcttttttttgttatactataaaagtatatttattgaccttttaccgtattttctagggaaatcaagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCUCAGCUUCUAGACAAAAUCAAAGCCUUUUAGGCUUUUUUUUGUUAUACUAUAAAAGUAUAUUUAUUGACCUUUUACCGUAUUUUCUAGGGAAAUCAAGU (((..((......(((((((..((((((.....)))))).))))))).(((..((((((..((.....))..))))))..)))....))..)))........ (-19.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUGAUUUCCCUAGAAAAUACGGUAAAAGGUCAAUAAAUAUACUUUUAUAGUAUAACAAAAAAAAGCCUAAAAGGCUUUGAUUUUGUCUAGAAGCUGAGGA .(((..((((..((((..((((.(((((((.............))))))).))))..(((((.((((((.....))))))..)))))))))))))..))).. (-22.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 285 44 3 72 32 smit:SMT_1836|5end_cytidine/deoxycytidylate_deaminase_family_protein_1804498..1804728_NEGATIVE 256 47 1 188 126 smit:SMT_553|5end_hypothetical_protein_471128..471358_POSITIVE 253 50 1 152 83 smit:SMT_1492|5end_DNA-directed_RNA_polymerase_beta_chain_1472093..1472323_POSITIVE 239 44 4 206 165 smit:SMT_431|5end_UDP-N-acetylmuramoyl-L-alanyl-D-glutamate_synthetase_372199..372429_POSITIVE 238 44 3 72 32 smit:SMT_1674|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1660501..1660731_NEGATIVE 235 38 3 221 182 smit:SMT_1673|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1659831..1660061_POSITIVE 233 42 1 68 28 smit:SMT_2034|5end_hydrolase,_haloacid_dehalogenase-like_family_1946671..1946901_POSITIVE 229 45 3 223 172 smit:SMT_1493|5end_DNA-directed_RNA_polymerase,_beta'_subunit/160_kD_subunit_1475737..1475967_POSITIVE 224 50 1 92 37 smit:SMT_2014|5end_tryptophan_synthase_beta_chain_1932471..1932701_POSITIVE 217 49 2 86 49 smit:SMT_1029|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_965632..965862_NEGATIVE 214 35 6 66 41 smit:SMT_1067|5end_alanine_racemase_1005769..1005999_POSITIVE 214 46 2 62 25 smit:SMT_153|5end_sensor_histidine_kinase,_putative_101443..101673_POSITIVE 210 48 4 185 135 smit:SMT_360|5end_K07742_hypothetical_protein_295628..295858_POSITIVE 208 45 3 159 111 smit:SMT_498|5end_hypothetical_protein_431751..431981_POSITIVE 207 94 51 45 6 smit:SMT_895|5end_cysteinyl-tRNA_synthetase_843037..843267_NEGATIVE 207 94 51 45 6 smit:SMT_383|5end_cysteinyl-tRNA_synthetase_318689..318919_POSITIVE 207 55 19 117 86 smit:SMT_108|5end_hypothetical_protein_53488..53718_POSITIVE 206 47 4 48 7 smit:SMT_1541|5end_isopentenyl-diphosphate_delta-isomerase_1526093..1526323_NEGATIVE 204 37 2 231 194 smit:SMT_1174|5end_acylneuraminate_cytidylyltransferase_1126321..1126551_NEGATIVE 203 35 2 55 5 smit:SMT_1849|5end_hypothetical_protein_1813074..1813304_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 239 44 4 91 50 smit:SMT_430|3end_hypothetical_protein_372164..372314_POSITIVE 233 42 1 56 16 smit:SMT_2033|3end_hydrolase,_haloacid_dehalogenase-like_family_1946739..1946889_POSITIVE 232 46 9 89 55 smit:SMT_699|3end_K03106_signal_recognition_particle,_subunit_SRP54_609941..610091_NEGATIVE 231 48 1 93 53 smit:SMT_1124|3end_pyrrolidone-carboxylate_peptidase_1060225..1060375_NEGATIVE 228 98 70 121 88 smit:SMT_211|3end_hypothetical_protein_predicted_by_Glimmer/Critica_144316..144466_POSITIVE 224 50 1 62 7 smit:SMT_2013|3end_alpha-glycerophosphate_oxidase_1932521..1932671_POSITIVE 220 38 2 49 2 smit:SMT_1075|3end_hypothetical_protein_1013870..1014020_POSITIVE 217 49 2 51 14 smit:SMT_1030|3end_alpha-galactosidase_965667..965817_NEGATIVE 214 35 6 76 51 smit:SMT_1066|3end_holo-(acyl_carrier_protein)_synthase_1005859..1006009_POSITIVE 213 47 5 151 108 smit:SMT_900|3end_5-methyltetrahydropteroyltriglutamate--_homocysteine_methyltransferase_848367..848517_NEGATIVE 208 64 21 47 1 smit:SMT_517|3end_hypothetical_protein_443191..443341_POSITIVE 208 45 3 138 90 smit:SMT_497|3end_hypothetical_protein_431810..431960_POSITIVE 206 47 4 64 23 smit:SMT_1542|3end_phosphomevalonate_kinase_1526077..1526227_NEGATIVE 202 40 2 104 65 smit:SMT_1251|3end_hypothetical_protein_1211329..1211479_NEGATIVE 199 37 3 74 38 smit:SMT_272|3end_hypothetical_protein_211831..211981_NEGATIVE 198 48 1 79 25 smit:SMT_1679|3end_hypothetical_protein_1663590..1663740_POSITIVE 196 46 12 76 38 smit:SMT_553|3end_hypothetical_protein_471402..471552_POSITIVE 191 46 1 94 55 smit:SMT_1077|3end_GTP_cyclohydrolase_I_1014856..1015006_NEGATIVE 191 47 2 63 12 smit:SMT_209|3end_acetyltransferase,_GNAT_family_143448..143598_POSITIVE 191 42 1 87 39 smit:SMT_110|3end_alpha-L-fucosidase_59207..59357_POSITIVE