Origin IGS: tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgctttcctccattctttgatttgataggactattatagccccaaaactcaagaaaaaacatggacaatgatagggaaaaataggaatttaatcagattatgtaaaaaatgttgcaaaaaaagccagacacagtctgactttgatggaaacagaaaagaaaattca Mask Tandem Repeat Region ================================================ tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Find is-nt database================================================ Query_seq: SMT_398:SMT_399|SMT_398:SMT_399:hypothetical protein:cytochrome c-type biogenesis protein CcdA:->->:328340..328505 166 tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_398:SMT_399|SMT_398:SMT_399:hypothetical protein:cytochrome c-type biogenesis protein CcdA:->->:328340..328505 166 tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_398:SMT_399|SMT_398:SMT_399:hypothetical protein:cytochrome c-type biogenesis protein CcdA:->->:328340..328505 166 tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 14 End: 115 ............. M F P S K S D C V W L F L Q H F L H N L I K F L F F P I I V H V F S ................................................... Protein_Len: 33 Strand: - Start: 1 End: 99 S N E K R N G D F D S Q T Q S K K C C K K C L R I L N R N K G I M ................................................................... tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca 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================================================ tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_398:SMT_399|SMT_398:SMT_399:hypothetical protein:cytochrome c-type biogenesis protein CcdA:->->:328340..328505 166 tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Intra-Species Hit: Count: 1 Min: 1 Max: 166 Len: 166 Subject: smit_SMT_398_SMT_399|hypothetical protein:cytochrome c-type biogenesis protein CcdA|POSITIVE:POSITIVE|[328340,328505]|166 HSP 1 e-value: 6.0E-77 bit: 287.0 Len: 166 Query Start:1 Query End:166 Subject Strand: POSITIVE Subject Start: 1 Subject End: 166 tgaattttcttttctgtttccatcaaagtcagactgtgtctggcnnnnnnngcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca tgaattttcttttctgtttccatcaaagtcagactgtgtctggctttttttgcaacattttttacataatctgattaaattcctatttttccctatcattgtccatgttttttcttgagttttggggctataatagtcctatcaaatcaaagaatggaggaaagca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUUUUCUUUUCUGUUUCCAUCAAAGUCAGACUGUGUCUGGCUUUUUUUGCAACAUUUUUUACAUAAUCUGAUUAAAUUCCUAUUUUUCCCUAUCAUUGUCCAUGUUUUUUCUUGAGUUUUGGGGCUAUAAUAGUCCUAUCAAAUCAAAGAAUGGAGGAAAGCA .((((((.......((((..((..((((((((((...))))))))))...)).)))).......((.....))...))))))....((((((.........(((((......((((((....((((((((...)))))))).....)).))))))))))))))).. (-31.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUUUCCUCCAUUCUUUGAUUUGAUAGGACUAUUAUAGCCCCAAAACUCAAGAAAAAACAUGGACAAUGAUAGGGAAAAAUAGGAAUUUAAUCAGAUUAUGUAAAAAAUGUUGCAAAAAAAGCCAGACACAGUCUGACUUUGAUGGAAACAGAAAAGAAAAUUCA ...((((((...(((((.((((((...((.(((...))))).))))..)))))))....(((.....)))...)))))).....((((((..(((((((.(((.......(((........)))...))).)))))))((((..((....))..)))).)))))). (-29.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 138 91 84 41 smit:SMT_382|5end_valyl-tRNA_synthetase_317706..317936_POSITIVE 263 127 87 131 93 smit:SMT_1954|5end_6-phospho-beta-glucosidase_1888548..1888778_POSITIVE 261 80 31 196 141 smit:SMT_759|5end_K01992_ABC-2_type_transport_system_permease_protein_665712..665942_NEGATIVE 258 73 31 58 11 smit:SMT_404|5end_hypothetical_protein_333386..333616_POSITIVE 256 130 81 135 84 smit:SMT_1303|5end_tRNA-dihydrouridine_synthase_1265731..1265961_NEGATIVE 255 140 91 119 73 smit:SMT_1043|5end_chaperonin_GroEL_985766..985996_NEGATIVE 251 44 5 134 94 smit:SMT_140|5end_NUDIX_family_hydrolase_90990..91220_POSITIVE 248 129 84 150 109 smit:SMT_327|5end_hypothetical_protein_263953..264183_POSITIVE 247 139 91 185 138 smit:SMT_2078|5end_acetyl_xylan_esterase,_putative_1979571..1979801_POSITIVE 247 130 93 48 1 smit:SMT_1048|5end_K06518_holin-like_protein_988142..988372_POSITIVE 247 130 81 150 103 smit:SMT_653|5end_positive_transcriptional_regulator_MutR_family_564155..564385_NEGATIVE 247 160 112 189 141 smit:SMT_110|5end_alpha-L-fucosidase_57445..57675_POSITIVE 246 46 1 132 80 smit:SMT_1371|5end_hypothetical_protein_1350794..1351024_NEGATIVE 246 42 5 174 139 smit:SMT_1104|5end_K06346_spoIIIJ-associated_protein_1046784..1047014_NEGATIVE 246 45 5 113 66 smit:SMT_414|5end_K03665_GTP-binding_protein_HflX_357554..357784_POSITIVE 245 47 3 193 135 smit:SMT_236|5end_ribosomal_small_subunit_pseudouridine_synthase_A_174625..174855_POSITIVE 244 65 21 52 2 smit:SMT_1588|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1577062..1577292_POSITIVE 244 54 12 183 147 smit:SMT_949|5end_glycosyl_transferase,_family_2_897693..897923_NEGATIVE 242 44 5 125 85 smit:SMT_811|5end_ATP-dependent_RNA_helicase_721025..721255_POSITIVE 242 49 10 163 126 smit:SMT_665|5end_NAD+_kinase_576745..576975_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 48 4 147 97 smit:SMT_1376|3end_tetrapyrrole_(corrin/porphyrin)_methylase_family_protein_1354675..1354825_NEGATIVE 270 53 11 137 78 smit:SMT_1425|3end_hypothetical_protein_1410533..1410683_NEGATIVE 270 129 81 139 99 smit:SMT_1043|3end_chaperonin_GroEL_985110..985260_NEGATIVE 257 48 20 58 28 smit:SMT_1313|3end_extramembranal_protein_1278622..1278772_POSITIVE 251 44 5 122 82 smit:SMT_139|3end_hypothetical_protein_91058..91208_POSITIVE 247 130 81 148 101 smit:SMT_654|3end_K06158_ATP-binding_cassette,_sub-family_F,_member_3_564157..564307_NEGATIVE 246 46 1 123 71 smit:SMT_1372|3end_hypothetical_protein_1350803..1350953_NEGATIVE 246 45 5 120 73 smit:SMT_413|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_357641..357791_POSITIVE 243 53 13 70 17 smit:SMT_1625|3end_DNA_polymerase_IV_1615066..1615216_POSITIVE 242 44 5 128 88 smit:SMT_810|3end_oxidoreductase_721108..721258_POSITIVE 242 160 114 53 13 smit:SMT_219|3end_phosphatidate_cytidylyltransferase_151805..151955_POSITIVE 236 44 1 150 106 smit:SMT_1079|3end_dihydropteroate_synthase_1016715..1016865_NEGATIVE 235 53 14 73 34 smit:SMT_2134|3end_hypothetical_protein_2014122..2014272_NEGATIVE 235 53 13 144 95 smit:SMT_2007|3end_hypothetical_protein_1928147..1928297_POSITIVE 235 53 14 73 34 smit:SMT_873|3end_hypothetical_protein_820733..820883_NEGATIVE 235 53 14 73 34 smit:SMT_384|3end_hypothetical_protein_319860..320010_POSITIVE 231 58 21 40 5 smit:SMT_1383|3end_ribonucleoside-diphosphate_reductase_alpha_chain_1360795..1360945_NEGATIVE 228 49 10 143 110 smit:SMT_359|3end_transcription_termination-antitermination_factor_295686..295836_POSITIVE 227 53 19 126 87 smit:SMT_897|3end_serine_O-acetyltransferase_844015..844165_NEGATIVE 226 66 27 45 8 smit:SMT_549|3end_hypothetical_cytosolic_protein_467367..467517_POSITIVE