Origin IGS: tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata .........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 tatctgttagacttggatgagtttatcaataagaatgtcggaaaattttctgatattcttatttttttgacttctttttcgaatagataggtaagaggaaaaaggaaaggagcctagttcatgtttatatcaatgttctacccatggttcactgagttattttttaaataaaatttaatttagttgtgtattttcggattatttttcgaataaataagtgagaagaaaaagaaaggaataaaata Mask Tandem Repeat Region ================================================ tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Find is-nt database================================================ Query_seq: SMT_1204:SMT_1205|SMT_1204:SMT_1205:hypothetical protein predicted by Glimmer/Critica:response regulator:<-<-:1164814..1165058 245 tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1204:SMT_1205|SMT_1204:SMT_1205:hypothetical protein predicted by Glimmer/Critica:response regulator:<-<-:1164814..1165058 245 tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1204:SMT_1205|SMT_1204:SMT_1205:hypothetical protein predicted by Glimmer/Critica:response regulator:<-<-:1164814..1165058 245 tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Predict ORF larger than 30AA ================================================ tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata 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================================================ tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.4 Tail_Score: -5.57054 Start: 185 End: 216 Full_Region: ggatgagtttatcaa taagaatgtcggaa aatt ttctgatattctta tttttttgacttctt ........................................................................................................................................................................................taagaatgtcggaaaattttctgatattctta............................. Find igs database================================================ Query_seq: SMT_1204:SMT_1205|SMT_1204:SMT_1205:hypothetical protein predicted by Glimmer/Critica:response regulator:<-<-:1164814..1165058 245 tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Intra-Species Hit: Count: 1 Min: 1 Max: 245 Len: 245 Subject: smit_SMT_1204_SMT_1205|hypothetical protein predicted by Glimmer/Critica:response regulator|NEGATIVE:NEGATIVE|[1164814,1165058]|245 HSP 1 e-value: 1.0E-124 bit: 444.0 Len: 245 Query Start:1 Query End:245 Subject Strand: POSITIVE Subject Start: 1 Subject End: 245 tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcnnnnnnntaagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata tattttattcctttctttttcttctcacttatttattcgaaaaataatccgaaaatacacaactaaattaaattttatttaaaaaataactcagtgaaccatgggtagaacattgatataaacatgaactaggctcctttcctttttcctcttacctatctattcgaaaaagaagtcaaaaaaataagaatatcagaaaattttccgacattcttattgataaactcatccaagtctaacagata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUUUAUUCCUUUCUUUUUCUUCUCACUUAUUUAUUCGAAAAAUAAUCCGAAAAUACACAACUAAAUUAAAUUUUAUUUAAAAAAUAACUCAGUGAACCAUGGGUAGAACAUUGAUAUAAACAUGAACUAGGCUCCUUUCCUUUUUCCUCUUACCUAUCUAUUCGAAAAAGAAGUCAAAAAAAUAAGAAUAUCAGAAAAUUUUCCGACAUUCUUAUUGAUAAACUCAUCCAAGUCUAACAGAUA ...........((((((((((...(((((......((((..........))))..........(((((........)))))...........)))))...((((((((.....((.......)).(((..(((.......)))..)))...))))))))......)))))))))).......(((((((((.((.(((....))).)).)))))))))...............(((.....))). (-32.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUCUGUUAGACUUGGAUGAGUUUAUCAAUAAGAAUGUCGGAAAAUUUUCUGAUAUUCUUAUUUUUUUGACUUCUUUUUCGAAUAGAUAGGUAAGAGGAAAAAGGAAAGGAGCCUAGUUCAUGUUUAUAUCAAUGUUCUACCCAUGGUUCACUGAGUUAUUUUUUAAAUAAAAUUUAAUUUAGUUGUGUAUUUUCGGAUUAUUUUUCGAAUAAAUAAGUGAGAAGAAAAAGAAAGGAAUAAAAUA ....((.(((((((....))))))).)).((((((((((((((....))))))))))))))(((((((.((((.(((((((((.((((((....(((((..........((((((((..(((..........)))..))).....))))).((((((((..((((....))))..)))))))).......)))))...)))))))))))).))).)))).))))))).................. (-53.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 860 140 91 231 182 smit:SMT_1204|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1164723..1164953_NEGATIVE 284 49 7 140 97 smit:SMT_678|5end_K04096_DNA_processing_protein_588295..588525_NEGATIVE 271 50 16 204 168 smit:SMT_971|5end_hypothetical_protein_918965..919195_NEGATIVE 269 166 134 114 82 smit:SMT_1499|5end_K03742_competence/damage-inducible_protein_CinA_N-terminal_domain_1483091..1483321_POSITIVE 258 165 125 73 23 smit:SMT_453|5end_CopAB_ATPase_metal-fist_type_repressor_390883..391113_POSITIVE 256 190 148 139 97 smit:SMT_1117|5end_competence_protein_CglA_1054703..1054933_NEGATIVE 252 180 133 143 92 smit:SMT_919|5end_hypothetical_protein_872499..872729_NEGATIVE 241 176 135 83 43 smit:SMT_1927|5end_cell_division_protein_FtsH_1868779..1869009_NEGATIVE 240 168 128 145 90 smit:SMT_736|5end_hypothetical_protein_642270..642500_NEGATIVE 239 137 101 102 57 smit:SMT_732|5end_K07467_phage_replication_initiation_protein_639409..639639_NEGATIVE 236 137 91 132 88 smit:SMT_324|5end_K02029_polar_amino_acid_transport_system_permease_protein_262070..262300_NEGATIVE 236 136 100 184 151 smit:SMT_235|5end_hypothetical_protein_174081..174311_POSITIVE 235 180 131 145 92 smit:SMT_1805|5end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1780463..1780693_POSITIVE 233 177 132 144 93 smit:SMT_789|5end_hypothetical_protein_701072..701302_NEGATIVE 230 177 131 59 8 smit:SMT_1510|5end_ribose_5-phosphate_isomerase_1493488..1493718_NEGATIVE 229 178 134 152 98 smit:SMT_1501|5end_recombination_protein_1484401..1484631_POSITIVE 228 167 133 134 98 smit:SMT_2160|5end_cell_division_protein_FtsA_2033524..2033754_POSITIVE 228 170 128 151 97 smit:SMT_590|5end_tetratricopeptide_repeat_family_protein_506737..506967_POSITIVE 228 159 111 106 55 smit:SMT_140|5end_NUDIX_family_hydrolase_90990..91220_POSITIVE 227 165 125 139 84 smit:SMT_1112|5end_K02248_competence_protein_ComGF_1051848..1052078_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 49 7 52 9 smit:SMT_679|3end_LicC_protein_588383..588533_NEGATIVE 269 166 134 36 4 smit:SMT_1498|3end_transcriptional_regulator,_LytR_family_1483093..1483243_POSITIVE 256 190 148 63 21 smit:SMT_1118|3end_hypothetical_protein_1054779..1054929_NEGATIVE 252 180 133 54 3 smit:SMT_920|3end_serine/threonine_protein_kinase_872588..872738_NEGATIVE 240 168 128 145 90 smit:SMT_737|3end_hypothetical_protein_642270..642420_NEGATIVE 239 137 101 99 54 smit:SMT_733|3end_hypothetical_protein_639412..639562_NEGATIVE 233 177 132 123 72 smit:SMT_790|3end_hypothetical_protein_701093..701243_NEGATIVE 229 178 134 97 43 smit:SMT_1500|3end_K03742_competence/damage-inducible_protein_CinA_N-terminal_domain_1484426..1484576_POSITIVE 228 159 111 94 43 smit:SMT_139|3end_hypothetical_protein_91058..91208_POSITIVE 223 148 101 78 25 smit:SMT_489|3end_K01999_branched-chain_amino_acid_transport_system_substrate-binding_protein_424507..424657_POSITIVE 213 108 89 149 125 smit:SMT_188|3end_LSU_ribosomal_protein_L30P_123767..123917_POSITIVE 211 53 12 122 71 smit:SMT_1749|3end_anthranilate_synthase_component_II_1728080..1728230_POSITIVE 208 148 112 99 64 smit:SMT_581|3end_ATP_synthase_A_chain_499069..499219_POSITIVE 207 186 146 75 35 smit:SMT_163|3end_cardiolipin_synthetase_108936..109086_POSITIVE 206 156 111 55 6 smit:SMT_297|3end_ABC_transporter_substrate-binding_protein_-_oligopeptide_transport_240606..240756_POSITIVE 205 175 131 139 93 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 205 146 104 113 67 smit:SMT_97|3end_hypothetical_protein_29011..29161_POSITIVE 204 177 137 75 30 smit:SMT_494|3end_K04767_acetoin_utilization_protein_AcuB_428891..429041_POSITIVE 203 138 91 84 21 smit:SMT_2078|3end_acetyl_xylan_esterase,_putative_1979839..1979989_POSITIVE 201 238 194 112 68 smit:SMT_693|3end_hypothetical_protein_604078..604228_POSITIVE