Origin IGS: tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa .........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 ttaattgtttttcttgaaagaaaagaattttaatatttttaattacatattttgattacttgatagccataaatgtttttcgagctccacaaaggctctccaaacatttatggacatcgcagtaatctcatttgaataattttatgtaaatctttcaagaaaaatttagtaatttgattataaatatttttttattatagaaaggaagaata Mask Tandem Repeat Region ================================================ tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Find is-nt database================================================ Query_seq: FN1328:FN1329|FN1328:FN1329:Exodeoxyribonuclease VII small subunit:Methyltransferase:<-<-:1983220..1983431 212 tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1328:FN1329|FN1328:FN1329:Exodeoxyribonuclease VII small subunit:Methyltransferase:<-<-:1983220..1983431 212 tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1328:FN1329|FN1328:FN1329:Exodeoxyribonuclease VII small subunit:Methyltransferase:<-<-:1983220..1983431 212 tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 91 End: 186 .......................................................................................... Q S T W L H K S L R Q P A R F V N I A I L Y D F Y T I L F I L M .......................... tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa 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================================================ tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1328:FN1329|FN1328:FN1329:Exodeoxyribonuclease VII small subunit:Methyltransferase:<-<-:1983220..1983431 212 tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Intra-Species Hit: Count: 1 Min: 1 Max: 212 Len: 212 Subject: NC_003454_FN1328_FN1329|Exodeoxyribonuclease VII small subunit:Methyltransferase|NEGATIVE:NEGATIVE|[1983220, 1983431]|212 HSP 1 e-value: 1.0E-104 bit: 379.0 Len: 212 Query Start:1 Query End:212 Subject Strand: POSITIVE Subject Start: 1 Subject End: 212 tattcttcctttctataatnnnnnnntatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa tattcttcctttctataataaaaaaatatttataatcaaattactaaatttttcttgaaagatttacataaaattattcaaatgagattactgcgatgtccataaatgtttggagagcctttgtggagctcgaaaaacatttatggctatcaagtaatcaaaatatgtaattaaaaatattaaaattcttttctttcaagaaaaacaattaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUCUUCCUUUCUAUAAUAAAAAAAUAUUUAUAAUCAAAUUACUAAAUUUUUCUUGAAAGAUUUACAUAAAAUUAUUCAAAUGAGAUUACUGCGAUGUCCAUAAAUGUUUGGAGAGCCUUUGUGGAGCUCGAAAAACAUUUAUGGCUAUCAAGUAAUCAAAAUAUGUAAUUAAAAAUAUUAAAAUUCUUUUCUUUCAAGAAAAACAAUUAA ................................................((((((((((((((.(((((((.......((....))(((((((..((((.((((((((((((...((((((....)).))))...)))))))))))).)))).)))))))....))))))).....................))))))))))))))....... (-51.65) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUGUUUUUCUUGAAAGAAAAGAAUUUUAAUAUUUUUAAUUACAUAUUUUGAUUACUUGAUAGCCAUAAAUGUUUUUCGAGCUCCACAAAGGCUCUCCAAACAUUUAUGGACAUCGCAGUAAUCUCAUUUGAAUAAUUUUAUGUAAAUCUUUCAAGAAAAAUUUAGUAAUUUGAUUAUAAAUAUUUUUUUAUUAUAGAAAGGAAGAAUA (((...(((((((((((((((.((((((......))))))..(((((((....(((((((((((..((((((((((((...(((((.......)))))...))))))))))))..)))).)))))))((....)).......))))))).)))))))))))))))....)))............((((((((..((....))..)))))))) (-53.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 919 140 91 231 182 NC_003454:FN1328|5end_Exodeoxyribonuclease_VII_small_subunit_1983129..1983359_NEGATIVE 608 130 81 212 163 NC_003454:FN0054|5end_tyrosyl-tRNA_synthetase_690836..691066_POSITIVE 545 130 83 184 138 NC_003454:FN1351|5end_15_kDa_lipoprotein_precursor_2003372..2003602_NEGATIVE 513 139 91 214 167 NC_003454:FN1142|5end_Oxygen-independent_coproporphyrinogen_III_oxidase_1791529..1791759_POSITIVE 480 130 81 185 137 NC_003454:FN1439|5end_Transcriptional_regulator,_DeoR_family_2106428..2106658_POSITIVE 480 130 81 81 33 NC_003454:FN1438|5end_hypothetical_protein_2106324..2106554_POSITIVE 426 160 111 225 178 NC_003454:FN1995|5end_hypothetical_protein_498245..498475_POSITIVE 423 139 91 223 176 NC_003454:FN1581|5end_DNA_mismatch_repair_protein_mutS_93231..93461_NEGATIVE 402 126 81 231 187 NC_003454:FN1731|5end_Anthranilate_synthase_component_II_231037..231267_NEGATIVE 375 135 91 218 173 NC_003454:FN1740|5end_ATP_synthase_subunit_K_238400..238630_NEGATIVE 341 128 83 176 125 NC_003454:FN0053|5end_Branched-chain_amino_acid_transport_system_carrier_protein_689340..689570_POSITIVE 298 127 83 187 149 NC_003454:FN0723|5end_hypothetical_protein_1381528..1381758_POSITIVE 280 118 80 206 169 NC_003454:FN0220|5end_Autolysin_sensor_kinase_844934..845164_NEGATIVE 273 133 96 194 149 NC_003454:FN1856|5end_Butyrate-acetoacetate_CoA-transferase_subunit_B_346146..346376_NEGATIVE 256 117 81 228 194 NC_003454:FN1984|5end_Glutaredoxin-like_protein_485487..485717_POSITIVE 247 47 3 134 94 NC_003454:FN1188|5end_hypothetical_protein_1850780..1851010_POSITIVE 223 133 96 201 161 NC_003454:FN0242|5end_Trk_system_potassium_uptake_protein_trkA_865228..865458_POSITIVE 216 152 111 184 145 NC_003454:FN1365|5end_GTP-binding_protein_2016739..2016969_NEGATIVE 207 157 124 192 157 NC_003454:FN0344|5end_Methyltransferase_977761..977991_NEGATIVE 203 147 103 41 1 NC_003454:FN1212|5end_hypothetical_protein_1873168..1873398_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 545 130 83 50 4 NC_003454:FN1352|3end_ABC_transporter_ATP-binding_protein_2003506..2003656_NEGATIVE 520 156 115 64 23 NC_003454:FN1259|3end_Uracil-DNA_glycosylase_1915756..1915906_POSITIVE 499 130 81 51 3 NC_003454:FN0828|3end_ABC_transporter_permease_protein_1489505..1489655_POSITIVE 433 160 111 77 28 NC_003454:FN1077|3end_hypothetical_protein_1723754..1723904_NEGATIVE 375 135 91 57 12 NC_003454:FN1741|3end_ATP_synthase_subunit_I_238561..238711_NEGATIVE 313 140 91 53 4 NC_003454:FN0052|3end_Arsenate_reductase_689291..689441_POSITIVE 228 155 111 54 4 NC_003454:FN2007|3end_Glutathione_peroxidase_506877..507027_NEGATIVE 222 132 93 39 14 NC_003454:FN1315|3end_hypothetical_protein_1968921..1969071_NEGATIVE 219 150 102 72 32 NC_003454:FN1675|3end_Transposase_172206..172356_NEGATIVE 202 128 83 47 5 NC_003454:FN0531|3end_hypothetical_protein_1186573..1186723_POSITIVE 190 130 99 79 41 NC_003454:FN1993|3end_SUA5_protein_497650..497800_POSITIVE 189 135 99 76 45 NC_003454:FN2020|3end_translation_initiation_factor_IF-2_522309..522459_NEGATIVE 185 103 76 136 108 NC_003454:FN1426|3end_Serine_protease_2092577..2092727_NEGATIVE 185 46 3 151 109 NC_003454:FN0966|3end_Precorrin-6Y_C5,15-methyltransferase_[decarboxylating]_1619280..1619430_NEGATIVE 185 103 76 136 108 NC_003454:FN1950|3end_Serine_protease_455063..455213_NEGATIVE 184 92 55 88 47 NC_003454:FN0894|3end_hypothetical_protein_1554893..1555043_POSITIVE 181 152 116 139 97 NC_003454:FN0315|3end_Transcriptional_regulator,_AraC_family_952859..953009_POSITIVE 177 130 87 133 79 NC_003454:FN1738|3end_ATP_synthase_subunit_C_236340..236490_NEGATIVE 174 20 3 143 126 NC_003454:FN1603|3end_2',3'-cyclic_nucleotide_3'-phosphodiesterase_111610..111760_NEGATIVE 172 129 82 149 112 NC_003454:FN1127|3end_Hypothetical_membrane-spanning_protein_1770307..1770457_NEGATIVE