Origin IGS: agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atcgtggaagcaatcaactacgcaaatggctctaacatgactttgcccgccgatgctcaaattgttcaaggtgtatcgggcaatgccgtttatttaccggcaggagctggaact Mask Tandem Repeat Region ================================================ agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Find is-nt database================================================ Query_seq: TDE1139:TDE1140|TDE1139:TDE1140:hypothetical protein:hypothetical protein:<-<-:1168706..1168819 114 agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1139:TDE1140|TDE1139:TDE1140:hypothetical protein:hypothetical protein:<-<-:1168706..1168819 114 agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1139:TDE1140|TDE1139:TDE1140:hypothetical protein:hypothetical protein:<-<-:1168706..1168819 114 agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 22 End: 114 ..................... M N G I A R Y T L N N L S I G G Q S H V R A I C V V D C F H D Protein_Len: 38 Strand: - Start: 1 End: 114 T G A G A P L Y V A N G S V G Q V I Q A D A P L T M N S G N A Y N I A E V M agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat 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================================================ agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1139:TDE1140|TDE1139:TDE1140:hypothetical protein:hypothetical protein:<-<-:1168706..1168819 114 agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: NC_002967_TDE1139_TDE1140|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1168706,1168819]|114 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat agttccagctcctgccggtaaataaacggcattgcccgatacaccttgaacaatttgagcatcggcgggcaaagtcatgttagagccatttgcgtagttgattgcttccacgat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUCCAGCUCCUGCCGGUAAAUAAACGGCAUUGCCCGAUACACCUUGAACAAUUUGAGCAUCGGCGGGCAAAGUCAUGUUAGAGCCAUUUGCGUAGUUGAUUGCUUCCACGAU .......((((..((((.........)))).(((((((......((..(.....)..))......)))))))..........)))).....(((........)))......... (-27.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCGUGGAAGCAAUCAACUACGCAAAUGGCUCUAACAUGACUUUGCCCGCCGAUGCUCAAAUUGUUCAAGGUGUAUCGGGCAAUGCCGUUUAUUUACCGGCAGGAGCUGGAACU ..(((((..........))))).(((((((............(((((((...(((((............)))))..))))))).))))))).....(((((....))))).... (-29.62) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 995 50 1 141 92 NC_002967:TDE1139|5end_hypothetical_protein_1168615..1168845_NEGATIVE 386 100 51 127 68 NC_002967:TDE1926|5end_hypothetical_protein_1942495..1942725_POSITIVE 362 49 1 210 158 NC_002967:TDE0946|5end_hypothetical_protein_968212..968442_POSITIVE 352 68 28 45 1 NC_002967:TDE1548|5end_conserved_hypothetical_protein_TIGR00103_1591835..1592065_POSITIVE 342 60 15 66 16 NC_002967:TDE1540|5end_hypothetical_protein_1584422..1584652_POSITIVE 337 99 59 225 187 NC_002967:TDE2640|5end_hypothetical_protein_2680034..2680264_POSITIVE 326 46 6 86 44 NC_002967:TDE0544|5end_hypothetical_protein_583854..584084_POSITIVE 320 69 27 136 82 NC_002967:TDE1080|5end_dimethyladenosine_transferase_1111738..1111968_POSITIVE 317 38 2 199 159 NC_002967:TDE2268|5end_hypothetical_protein_2304959..2305189_NEGATIVE 314 38 9 29 1 NC_002967:TDE1072|5end_lipoprotein,_putative_1100741..1100971_POSITIVE 313 109 61 200 149 NC_002967:TDE2583|5end_hypothetical_protein_2616322..2616552_POSITIVE 311 46 6 160 110 NC_002967:TDE1566|5end_hypothetical_protein_1617822..1618052_POSITIVE 306 46 2 173 129 NC_002967:TDE2102|5end_hypothetical_protein_2127347..2127577_NEGATIVE 306 46 2 99 57 NC_002967:TDE0163|5end_flavodoxin_193383..193613_NEGATIVE 305 46 1 74 20 NC_002967:TDE2131|5end_cobalamin_biosynthesis_protein_CbiM,_putative_2162683..2162913_NEGATIVE 305 49 2 109 55 NC_002967:TDE1362|5end_hypothetical_protein_1400992..1401222_POSITIVE 305 90 42 219 167 NC_002967:TDE0475|5end_ABC_transporter,_ATP-binding_protein_532208..532438_NEGATIVE 304 46 2 98 54 NC_002967:TDE2240|5end_hypothetical_protein_2278422..2278652_NEGATIVE 302 95 59 224 176 NC_002967:TDE2423|5end_ribosomal_protein_L10_2454034..2454264_NEGATIVE 301 86 45 46 4 NC_002967:TDE2164|5end_hypothetical_protein_2196955..2197185_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 341 110 62 102 55 NC_002967:TDE0471|3end_BNR_domain_protein_526657..526807_NEGATIVE 332 109 62 151 113 NC_002967:TDE1850|3end_ABC_transporter,_permease_protein,_putative_1878227..1878377_NEGATIVE 321 95 51 148 98 NC_002967:TDE1925|3end_peptidyl-prolyl_cis-trans_isomerase,_FKBP-type_1942605..1942755_POSITIVE 320 69 27 123 69 NC_002967:TDE1079|3end_DNA-binding_protein/PTS_system,_IIA_component_1111805..1111955_POSITIVE 315 45 10 148 104 NC_002967:TDE1740|3end_hypothetical_protein_1792630..1792780_NEGATIVE 311 98 54 128 80 NC_002967:TDE2239|3end_hypothetical_protein_2276554..2276704_NEGATIVE 306 46 2 65 23 NC_002967:TDE0164|3end_hypothetical_protein_193417..193567_NEGATIVE 305 49 2 143 89 NC_002967:TDE1361|3end_hypothetical_protein_1401106..1401256_POSITIVE 299 100 61 151 113 NC_002967:TDE1109|3end_decarboxylase,_pyridoxal-dependent_family_1144329..1144479_POSITIVE 298 89 43 129 79 NC_002967:TDE0003|3end_hypothetical_protein_4282..4432_POSITIVE 295 110 63 82 38 NC_002967:TDE2181|3end_PAP2_family_protein_2211995..2212145_NEGATIVE 289 60 16 126 82 NC_002967:TDE2492|3end_hypothetical_protein_2515509..2515659_NEGATIVE 289 60 11 110 66 NC_002967:TDE0741|3end_hypothetical_protein_776185..776335_NEGATIVE 288 69 24 138 95 NC_002967:TDE1887|3end_TPR_domain_protein_1908492..1908642_NEGATIVE 281 103 61 66 20 NC_002967:TDE2445|3end_DNA-binding_protein_2474667..2474817_POSITIVE 281 47 7 67 31 NC_002967:TDE2084|3end_RNA_methyltransferase,_TrmH_family_2114229..2114379_POSITIVE 281 95 57 125 86 NC_002967:TDE0833|3end_lipoprotein,_putative_854097..854247_POSITIVE 279 93 51 62 6 NC_002967:TDE0769|3end_ribosomal_protein_L23_807998..808148_POSITIVE 278 110 61 83 29 NC_002967:TDE1131|3end_hypothetical_protein_1163531..1163681_POSITIVE 277 87 44 51 9 NC_002967:TDE0621|3end_MATE_efflux_family_protein_654776..654926_POSITIVE