Origin IGS: ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc .........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 gaggataagcgatgaatgaaatgactaacgagtatactattgaagtactaaaggaaagcgacttagctttgctggtgggtggtagcaaggaaagttatcaagggggtctaattacaggtctattgttacgtagtgtatttattggaaccccattttttagaagataagatttagaaaaaatagaacaagaggagaaaagg Mask Tandem Repeat Region ================================================ ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Find is-nt database================================================ Query_seq: SMT_1203:SMT_1204|SMT_1203:SMT_1204:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164485..1164684 200 ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1203:SMT_1204|SMT_1203:SMT_1204:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164485..1164684 200 ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1203:SMT_1204|SMT_1203:SMT_1204:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164485..1164684 200 ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Predict ORF larger than 30AA ================================================ Protein_Len: 51 Strand: - Start: 37 End: 189 .................................... R R F F P T G I F V S R L L L G T I L G G Q Y S E K S G G V L L A L D S E K L V E I T Y E N T M E N M ........... ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc 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================================================ ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 51 HP_score: -2.1 Tail_Score: -3.84961 Start: 129 End: 148 Full_Region: TGCTACCACCCACCA GCAAAGC TAAGTC GCTTTCC TTTAGTACTTCAATA ................................................................................................................................GCAAAGCTAAGTCGCTTTCC.................................................... Find igs database================================================ Query_seq: SMT_1203:SMT_1204|SMT_1203:SMT_1204:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164485..1164684 200 ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Intra-Species Hit: Count: 1 Min: 1 Max: 200 Len: 200 Subject: smit_SMT_1203_SMT_1204|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[1164485,1164684]|200 HSP 1 e-value: 1.0E-109 bit: 396.0 Len: 200 Query Start:1 Query End:200 Subject Strand: POSITIVE Subject Start: 1 Subject End: 200 ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc ccttttctcctcttgttctattttttctaaatcttatcttctaaaaaatggggttccaataaatacactacgtaacaatagacctgtaattagacccccttgataactttccttgctaccacccaccagcaaagctaagtcgctttcctttagtacttcaatagtatactcgttagtcatttcattcatcgcttatcctc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCUUUUCUCCUCUUGUUCUAUUUUUUCUAAAUCUUAUCUUCUAAAAAAUGGGGUUCCAAUAAAUACACUACGUAACAAUAGACCUGUAAUUAGACCCCCUUGAUAACUUUCCUUGCUACCACCCACCAGCAAAGCUAAGUCGCUUUCCUUUAGUACUUCAAUAGUAUACUCGUUAGUCAUUUCAUUCAUCGCUUAUCCUC .................................................((((((....(((.(((((((........)))...)))).)))))))))..(((((((....................((.(((((......))))).))...(((((.....)))))....))).))))..................... (-20.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGGAUAAGCGAUGAAUGAAAUGACUAACGAGUAUACUAUUGAAGUACUAAAGGAAAGCGACUUAGCUUUGCUGGUGGGUGGUAGCAAGGAAAGUUAUCAAGGGGGUCUAAUUACAGGUCUAUUGUUACGUAGUGUAUUUAUUGGAACCCCAUUUUUUAGAAGAUAAGAUUUAGAAAAAAUAGAACAAGAGGAGAAAAGG ...(((((.(......((..((.(((.((.(((((.........)))))..((.(((((......))))).)).)).))).))..))......))))))..((((.((((((.......((((......)))).......)))))).)))).(((((((((........)))))))))...................... (-35.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 980 130 81 221 172 smit:SMT_1203|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1164394..1164624_NEGATIVE 306 174 134 220 186 smit:SMT_543|5end_topoisomerase_IV_subunit_B_458372..458602_POSITIVE 294 150 115 229 189 smit:SMT_154|5end_K03647_protein_involved_in_ribonucleotide_reduction_101930..102160_POSITIVE 292 156 111 137 81 smit:SMT_2045|5end_K+_transport_system,_NAD-binding_component_1956139..1956369_POSITIVE 287 155 112 188 144 smit:SMT_1201|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1163920..1164150_NEGATIVE 281 159 111 101 48 smit:SMT_627|5end_glucose-1-phosphate_adenylyltransferase_531699..531929_POSITIVE 280 160 118 170 131 smit:SMT_1199|5end_lactococcin_A_ABC_transporter_permease_protein_1161063..1161293_NEGATIVE 274 148 110 218 180 smit:SMT_1398|5end_dihydroorotase_1373204..1373434_POSITIVE 272 178 131 147 93 smit:SMT_1245|5end_SOS_responce_UmuC_protein_1205120..1205350_POSITIVE 270 163 128 185 141 smit:SMT_857|5end_endo-beta-N-acetylglucosaminidase_802491..802721_NEGATIVE 266 132 92 72 25 smit:SMT_841|5end_dihydrodipicolinate_reductase_788025..788255_NEGATIVE 264 180 133 196 139 smit:SMT_1550|5end_hypothetical_protein_1534326..1534556_POSITIVE 264 160 122 68 23 smit:SMT_1080|5end_CAAX_amino_terminal_protease_family_protein_1018490..1018720_NEGATIVE 264 180 133 159 116 smit:SMT_320|5end_alcohol_dehydrogenase,_zinc-containing_259492..259722_NEGATIVE 261 160 111 224 162 smit:SMT_1534|5end_signal_peptidase_I_1517218..1517448_POSITIVE 260 169 124 89 31 smit:SMT_374|5end_hypothetical_protein_309788..310018_POSITIVE 258 149 108 146 95 smit:SMT_1954|5end_6-phospho-beta-glucosidase_1888548..1888778_POSITIVE 255 159 111 80 29 smit:SMT_2034|5end_hydrolase,_haloacid_dehalogenase-like_family_1946671..1946901_POSITIVE 254 157 112 48 4 smit:SMT_754|5end_3-dehydroquinate_synthase_659044..659274_NEGATIVE 253 162 125 105 65 smit:SMT_199|5end_K07166_ACT_domain-containing_protein_129471..129701_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 310 140 93 64 1 smit:SMT_1667|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1657439..1657589_NEGATIVE 293 165 121 74 28 smit:SMT_1157|3end_septation_ring_formation_regulator_EzrA_1100202..1100352_NEGATIVE 281 159 111 111 58 smit:SMT_626|3end_1,4-alpha-glucan_branching_enzyme_531789..531939_POSITIVE 272 178 131 96 42 smit:SMT_1244|3end_putative_repressor_protein_1205149..1205299_POSITIVE 271 144 101 43 3 smit:SMT_110|3end_alpha-L-fucosidase_59207..59357_POSITIVE 270 163 128 151 107 smit:SMT_858|3end_triosephosphate_isomerase_802525..802675_NEGATIVE 255 159 111 68 17 smit:SMT_2033|3end_hydrolase,_haloacid_dehalogenase-like_family_1946739..1946889_POSITIVE 247 150 110 141 98 smit:SMT_2042|3end_K04077_chaperonin_GroEL_(Hsp60)_1952960..1953110_NEGATIVE 244 198 156 110 69 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 243 151 118 62 19 smit:SMT_1116|3end_K02244_competence_protein_ComGB_1052798..1052948_NEGATIVE 238 124 89 116 78 smit:SMT_1218|3end_DNA_polymerase_I_1176688..1176838_NEGATIVE 237 159 111 87 40 smit:SMT_413|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_357641..357791_POSITIVE 236 149 118 151 118 smit:SMT_1200|3end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1161076..1161226_NEGATIVE 235 139 96 77 23 smit:SMT_607|3end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_520816..520966_POSITIVE 233 170 125 48 11 smit:SMT_1670|3end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_1659295..1659445_POSITIVE 233 130 84 85 46 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 233 105 62 136 84 smit:SMT_1266|3end_predicted_transcriptional_regulator_1231774..1231924_POSITIVE 233 147 107 61 9 smit:SMT_826|3end_hypothetical_protein_749591..749741_NEGATIVE 231 121 83 74 29 smit:SMT_167|3end_acetyltransferase,_GNAT_family_113757..113907_POSITIVE 230 168 125 48 14 smit:SMT_2134|3end_hypothetical_protein_2014122..2014272_NEGATIVE