Origin IGS: ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ccgaacttccagcannnnnttaattaattaannnnnttttgtaagggacatgaaggatcgatatcagataactcaagttcctaaaaaagaaattggagataaaa Mask Tandem Repeat Region ================================================ ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Find is-nt database================================================ Query_seq: SMT_1254:SMT_1255|SMT_1254:SMT_1255:hypothetical protein predicted by Glimmer/Critica:cell division protein FtsH:<-<-:1220973..1221076 104 ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1254:SMT_1255|SMT_1254:SMT_1255:hypothetical protein predicted by Glimmer/Critica:cell division protein FtsH:<-<-:1220973..1221076 104 ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1254:SMT_1255|SMT_1254:SMT_1255:hypothetical protein predicted by Glimmer/Critica:cell division protein FtsH:<-<-:1220973..1221076 104 ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Predict ORF larger than 30AA ================================================ ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg 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================================================ ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1254:SMT_1255|SMT_1254:SMT_1255:hypothetical protein predicted by Glimmer/Critica:cell division protein FtsH:<-<-:1220973..1221076 104 ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: smit_SMT_1254_SMT_1255|hypothetical protein predicted by Glimmer/Critica:cell division protein FtsH|NEGATIVE:NEGATIVE|[1220973,1221076]|104 HSP 1 e-value: 8.0E-35 bit: 147.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg ttttatctccaatttcttttttaggaacttgagttatctgatatcgatccttcatgtcccttacaaaannnnnttaattaattaannnnntgctggaagttcgg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAUCUCCAAUUUCUUUUUUAGGAACUUGAGUUAUCUGAUAUCGAUCCUUCAUGUCCCUUACAAAANNNNNUUAAUUAAUUAANNNNNUGCUGGAAGUUCGG ........(((((((((.....(((.((.((((..(((.......)))..)))).)).))).............(((....)))..........))))))).)) ( -9.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCGAACUUCCAGCANNNNNUUAAUUAAUUAANNNNNUUUUGUAAGGGACAUGAAGGAUCGAUAUCAGAUAACUCAAGUUCCUAAAAAAGAAAUUGGAGAUAAAA ......((((((........(((....))).............((((((.(((...(((.......)))...))).))))))..........))))))...... (-14.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 803 60 11 151 102 smit:SMT_1254|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1220882..1221112_NEGATIVE 261 60 12 73 24 smit:SMT_901|5end_hypothetical_protein_851434..851664_NEGATIVE 260 55 14 91 53 smit:SMT_1406|5end_chloride_channel_protein_1385513..1385743_NEGATIVE 256 50 10 155 115 smit:SMT_1552|5end_RNA_binding_protein_1535119..1535349_POSITIVE 255 60 12 204 145 smit:SMT_1711|5end_Xaa-Pro_dipeptidase_1697494..1697724_NEGATIVE 249 50 5 140 97 smit:SMT_1112|5end_K02248_competence_protein_ComGF_1051848..1052078_NEGATIVE 242 59 38 187 164 smit:SMT_1293|5end_K02051_sulfonate/nitrate/taurine_transport_system_substrate-binding_protein_1254976..1255206_POSITIVE 237 61 27 80 40 smit:SMT_1915|5end_pyridoxine_biosynthesis_protein_1860329..1860559_POSITIVE 234 60 13 100 47 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 230 46 1 135 86 smit:SMT_1084|5end_hypothetical_protein_1021925..1022155_NEGATIVE 228 47 7 95 52 smit:SMT_1660|5end_serine_protease_1650634..1650864_NEGATIVE 226 52 12 168 125 smit:SMT_313|5end_3R-hydroxymyristoyl_ACP_dehydrase_253843..254073_POSITIVE 224 42 4 226 192 smit:SMT_2040|5end_transcription-repair_coupling_factor_1951395..1951625_NEGATIVE 224 59 15 109 66 smit:SMT_1901|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1850537..1850767_POSITIVE 220 62 32 82 49 smit:SMT_538|5end_DNA-binding_response_regulator_CiaR_455337..455567_POSITIVE 218 59 11 95 41 smit:SMT_1428|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1414622..1414852_NEGATIVE 215 60 13 164 106 smit:SMT_522|5end_K02003_446719..446949_POSITIVE 213 65 21 165 115 smit:SMT_1586|5end_K07177_PDZ_domain-containing_protein_1575714..1575944_POSITIVE 211 58 11 64 23 smit:SMT_1934|5end_homoserine_dehydrogenase_1872402..1872632_POSITIVE 210 60 12 168 130 smit:SMT_485|5end_hypothetical_protein_421401..421631_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 60 12 83 34 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 260 55 14 74 36 smit:SMT_1407|3end_ribonuclease_HII_1385530..1385680_NEGATIVE 256 63 22 130 78 smit:SMT_261|3end_ImpB/MucB/SamB_family_protein_201655..201805_POSITIVE 249 62 38 131 104 smit:SMT_857|3end_endo-beta-N-acetylglucosaminidase_800881..801031_NEGATIVE 242 59 38 148 125 smit:SMT_1292|3end_K02050_sulfonate/nitrate/taurine_transport_system_permease_protein_1255017..1255167_POSITIVE 234 60 13 98 45 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 230 46 1 134 85 smit:SMT_1085|3end_sensor_histidine_kinase_(homolog_to_HK11_Spn)_1021926..1022076_NEGATIVE 224 42 4 134 100 smit:SMT_2041|3end_transcription-repair_coupling_factor_1951487..1951637_NEGATIVE 224 59 15 112 69 smit:SMT_1900|3end_K03710_GntR_family_transcriptional_regulator_1850620..1850770_POSITIVE 218 47 6 111 64 smit:SMT_349|3end_sensor_histidine_kinase_(homolog_to_BlpH_Spn)_288636..288786_POSITIVE 212 41 3 126 91 smit:SMT_1265|3end_hypothetical_protein_1230872..1231022_NEGATIVE 210 60 12 109 71 smit:SMT_486|3end_hypothetical_protein_421460..421610_NEGATIVE 209 59 16 100 38 smit:SMT_665|3end_NAD+_kinase_575927..576077_NEGATIVE 207 58 17 149 107 smit:SMT_543|3end_topoisomerase_IV_subunit_B_460344..460494_POSITIVE 202 59 12 127 73 smit:SMT_1025|3end_hypothetical_protein_959550..959700_NEGATIVE 201 63 27 56 8 smit:SMT_165|3end_anaerobic_ribonucleoside-triphosphate_reductase_113055..113205_POSITIVE 200 58 17 40 2 smit:SMT_1661|3end_K02986_small_subunit_ribosomal_protein_S4_1650694..1650844_NEGATIVE 199 62 23 113 61 smit:SMT_1650|3end_ribonuclease_III_1637087..1637237_POSITIVE 198 50 1 133 89 smit:SMT_365|3end_hypothetical_protein_301747..301897_POSITIVE 197 64 30 111 80 smit:SMT_895|3end_cysteinyl-tRNA_synthetase_841694..841844_NEGATIVE