Origin IGS: gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aggttctcctcccataaaaacttttttcgagaagtcttgcctttgcaaaactacatacaaccacgataaacagcggggctaaatttctaccgaactgtttatcatgcctccctgc Mask Tandem Repeat Region ================================================ gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Find is-nt database================================================ Query_seq: TDE0869:TDE0870|TDE0869:TDE0870:hypothetical protein:phosphatase/nucleotidase:->->:892723..892837 115 gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0869:TDE0870|TDE0869:TDE0870:hypothetical protein:phosphatase/nucleotidase:->->:892723..892837 115 gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0869:TDE0870|TDE0869:TDE0870:hypothetical protein:phosphatase/nucleotidase:->->:892723..892837 115 gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Predict ORF larger than 30AA ================================================ gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct 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================================================ gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0869:TDE0870|TDE0869:TDE0870:hypothetical protein:phosphatase/nucleotidase:->->:892723..892837 115 gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Intra-Species Hit: Count: 1 Min: 1 Max: 115 Len: 115 Subject: NC_002967_TDE0869_TDE0870|hypothetical protein:phosphatase/nucleotidase|POSITIVE:POSITIVE|[8927 23,892837]|115 HSP 1 e-value: 3.0E-59 bit: 228.0 Len: 115 Query Start:1 Query End:115 Subject Strand: POSITIVE Subject Start: 1 Subject End: 115 gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct gcagggaggcatgataaacagttcggtagaaatttagccccgctgtttatcgtggttgtatgtagttttgcaaaggcaagacttctcgaaaaaagtttttatgggaggagaacct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCAGGGAGGCAUGAUAAACAGUUCGGUAGAAAUUUAGCCCCGCUGUUUAUCGUGGUUGUAUGUAGUUUUGCAAAGGCAAGACUUCUCGAAAAAAGUUUUUAUGGGAGGAGAACCU (((.(.((.(((((((((((((..(((.........)))..))))))))))))).)).).))).(((((((....))))))).(((((((((....)))).)))))......... (-33.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGUUCUCCUCCCAUAAAAACUUUUUUCGAGAAGUCUUGCCUUUGCAAAACUACAUACAACCACGAUAAACAGCGGGGCUAAAUUUCUACCGAACUGUUUAUCAUGCCUCCCUGC .((((...(((.................))).(((.((((....)))).)))......))))..((((((((((((.............)))..)))))))))............ (-21.25) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 627 50 4 220 174 NC_002967:TDE1980|5end_hypothetical_protein_1992061..1992291_NEGATIVE 565 60 13 108 61 NC_002967:TDE2667|5end_hypothetical_protein_2704374..2704604_POSITIVE 415 50 5 67 22 NC_002967:TDE1583|5end_hypothetical_protein_1631808..1632038_POSITIVE 411 50 3 69 23 NC_002967:TDE1326|5end_hypothetical_protein_1361661..1361891_POSITIVE 393 49 13 148 112 NC_002967:TDE2479|5end_hypothetical_protein_2503290..2503520_NEGATIVE 367 52 13 149 110 NC_002967:TDE2220|5end_prolyl-tRNA_synthetase_2260885..2261115_POSITIVE 342 53 13 142 102 NC_002967:TDE1325|5end_hypothetical_protein_1361721..1361951_NEGATIVE 338 57 13 95 51 NC_002967:TDE2397|5end_hypothetical_protein_2425564..2425794_NEGATIVE 333 107 68 223 188 NC_002967:TDE2276|5end_hypothetical_protein_2312676..2312906_NEGATIVE 328 53 11 130 87 NC_002967:TDE1334|5end_hypothetical_protein_1370144..1370374_POSITIVE 319 87 41 231 171 NC_002967:TDE2311|5end_hypothetical_protein_2348238..2348468_POSITIVE 313 44 1 194 140 NC_002967:TDE2632|5end_peptide_ABC_transporter,_ATP-binding_protein,_putative_2672650..2672880_POSITIVE 312 50 1 201 141 NC_002967:TDE1485|5end_hypothetical_protein_1529697..1529927_POSITIVE 312 106 64 202 169 NC_002967:TDE1095|5end_alanine_racemase_1129826..1130056_POSITIVE 305 80 33 128 68 NC_002967:TDE2199|5end_racemase,_Asp/Glu/Hydantoin_family_2237150..2237380_NEGATIVE 301 44 1 62 27 NC_002967:TDE2240|5end_hypothetical_protein_2278422..2278652_NEGATIVE 298 52 11 147 103 NC_002967:TDE1655|5end_hypothetical_protein_1704958..1705188_POSITIVE 295 47 2 62 17 NC_002967:TDE1974|5end_UDP-N-acetylglucosamine--N-acetylmuramyl-_(pentapeptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase_1988910..1989140_NEGATIVE 294 78 36 76 38 NC_002967:TDE0374|5end_glycosyl_transferase,_group_1_family_protein_429200..429430_NEGATIVE 288 89 44 132 82 NC_002967:TDE0388|5end_hypothetical_protein_439173..439403_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 650 50 3 59 12 NC_002967:TDE1902|3end_hypothetical_protein_1922377..1922527_NEGATIVE 393 49 13 72 36 NC_002967:TDE2480|3end_heat_shock_protein_90_2503366..2503516_NEGATIVE 342 50 1 60 3 NC_002967:TDE2396|3end_putative_inner_membrane_protein_translocase_component_YidC_2423650..2423800_NEGATIVE 342 53 13 74 34 NC_002967:TDE1327|3end_hypothetical_protein_1361789..1361939_NEGATIVE 338 57 13 73 29 NC_002967:TDE2398|3end_conserved_hypothetical_protein_TIGR00278_2425586..2425736_NEGATIVE 330 54 11 81 38 NC_002967:TDE0869|3end_hypothetical_protein_892662..892812_POSITIVE 328 53 11 54 11 NC_002967:TDE1333|3end_hflC_protein,_putative_1370148..1370298_POSITIVE 310 53 13 77 37 NC_002967:TDE1916|3end_glycerol_kinase_1933277..1933427_NEGATIVE 309 87 42 85 41 NC_002967:TDE2135|3end_hypothetical_protein_2165418..2165568_POSITIVE 296 50 1 71 14 NC_002967:TDE0642|3end_hypothetical_protein_678460..678610_NEGATIVE 294 78 36 79 41 NC_002967:TDE0375|3end_ABC_transporter,_ATP-binding_protein_429197..429347_NEGATIVE 288 89 44 135 85 NC_002967:TDE0387|3end_(R)-hydroxyglutaryl-CoA_dehydratase_activator_439256..439406_POSITIVE 287 51 11 76 32 NC_002967:TDE1626|3end_glycine_cleavage_system_H_protein_1674911..1675061_NEGATIVE 287 57 11 145 96 NC_002967:TDE1005|3end_hypothetical_protein_1030495..1030645_POSITIVE 284 50 1 77 20 NC_002967:TDE2498|3end_metallo-beta-lactamase_family_protein_2522194..2522344_NEGATIVE 284 69 23 144 81 NC_002967:TDE2492|3end_hypothetical_protein_2515509..2515659_NEGATIVE 284 50 1 71 14 NC_002967:TDE1901|3end_ABC_transporter,_ATP-binding_protein_1922319..1922469_POSITIVE 283 90 41 126 80 NC_002967:TDE1535|3end_hypothetical_protein_1579137..1579287_NEGATIVE 279 29 3 149 124 NC_002967:TDE1326|3end_hypothetical_protein_1361842..1361992_POSITIVE 279 53 13 84 44 NC_002967:TDE0743|3end_thioredoxin_reductase_779751..779901_POSITIVE