Origin IGS: atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatctacgcattcctaaacctctaaagaggggatgtacccaaacattgcgttttgacacacaccccctctttttttattgcaatctcatacctgccgctcctacactgacatcctgaaaaagttagattcccccctcctgacttcctggcagaagcccttcccttcctcaaataaaagttattcaaaaaaatcatcgaatcacgtattttagaaaaacctttcatacgacaagttttaccttttggaaaacttttcacacctcataaaaatacatatcattatatgtcaactaactaataactttctatggaaaacttttcaacagctacatatttttttgtgaaataatttagcaaagaaaataaagaataactacttttgtagcctaaaagacacaacaaataaataaaggaaat Mask Tandem Repeat Region ================================================ atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Find is-nt database================================================ Query_seq: TF0186:TF0187|TF0186:TF0187:ribonucleotide reductase, alpha subunit:ferredoxin:->->:201873..202290 418 atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0186:TF0187|TF0186:TF0187:ribonucleotide reductase, alpha subunit:ferredoxin:->->:201873..202290 418 atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0186:TF0187|TF0186:TF0187:ribonucleotide reductase, alpha subunit:ferredoxin:->->:201873..202290 418 atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 1 End: 120 M S F I Y L L C L L G Y K S S Y S L F S L L N Y F T K K Y V A V E K F S I E S Y .......................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 160 End: 393 ............................................................................................................................................................... M K S F P K G K T C R M K G F S K I R D S M I F L N N F Y L R K G R A S A R K S G G G N L T F S G C Q C R S G R Y E I A ......................... Protein_Len: 35 Strand: - Start: 304 End: 408 ............................................................................................................................................................................................................................................................................................................... S T L T P A A P I L N C Y F F L P H T D F R L T Q T C G R K L P K P M .......... Protein_Len: 44 Strand: - Start: 209 End: 340 ................................................................................................................................................................................................................ F V H N S S K K S Y S K N S S P F P K Q W S T L L P S D L K K L I D T Y S R C T H S Q M .............................................................................. Protein_Len: 31 Strand: - Start: 154 End: 246 ......................................................................................................................................................... S T H F T K W F T F S T T H F T K R F Y T I R H N K Q I V K M ............................................................................................................................................................................ Protein_Len: 35 Strand: - Start: 123 End: 227 .......................................................................................................................... N T S M Y H Y T N K H P T F L K G F P L V Q R I F P K E L I R S E I M ............................................................................................................................................................................................... Protein_Len: 33 Strand: - Start: 77 End: 175 ............................................................................ L F I H L Q Q F T K W L F N N T L Q C I I I H I K I L H S F N E M ................................................................................................................................................................................................................................................... atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta 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================================================ atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0186:TF0187|TF0186:TF0187:ribonucleotide reductase, alpha subunit:ferredoxin:->->:201873..202290 418 atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Intra-Species Hit: Count: 1 Min: 1 Max: 418 Len: 418 Subject: tfor_TF0186_TF0187|ribonucleotide reductase, alpha subunit:ferredoxin|POSITIVE:POSITIVE|[201873,202290]|418 HSP 1 e-value: 0.0 bit: 704.0 Len: 418 Query Start:1 Query End:418 Subject Strand: POSITIVE Subject Start: 1 Subject End: 418 atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacnnnnnnntatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgannnnnnngaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaatnnnnnnngagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta atttcctttatttatttgttgtgtcttttaggctacaaaagtagttattctttattttctttgctaaattatttcacaaaaaaatatgtagctgttgaaaagttttccatagaaagttattagttagttgacatataatgatatgtatttttatgaggtgtgaaaagttttccaaaaggtaaaacttgtcgtatgaaaggtttttctaaaatacgtgattcgatgatttttttgaataacttttatttgaggaagggaagggcttctgccaggaagtcaggaggggggaatctaactttttcaggatgtcagtgtaggagcggcaggtatgagattgcaataaaaaaagagggggtgtgtgtcaaaacgcaatgtttgggtacatcccctctttagaggtttaggaatgcgtagatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUCCUUUAUUUAUUUGUUGUGUCUUUUAGGCUACAAAAGUAGUUAUUCUUUAUUUUCUUUGCUAAAUUAUUUCACAAAAAAAUAUGUAGCUGUUGAAAAGUUUUCCAUAGAAAGUUAUUAGUUAGUUGACAUAUAAUGAUAUGUAUUUUUAUGAGGUGUGAAAAGUUUUCCAAAAGGUAAAACUUGUCGUAUGAAAGGUUUUUCUAAAAUACGUGAUUCGAUGAUUUUUUUGAAUAACUUUUAUUUGAGGAAGGGAAGGGCUUCUGCCAGGAAGUCAGGAGGGGGGAAUCUAACUUUUUCAGGAUGUCAGUGUAGGAGCGGCAGGUAUGAGAUUGCAAUAAAAAAAGAGGGGGUGUGUGUCAAAACGCAAUGUUUGGGUACAUCCCCUCUUUAGAGGUUUAGGAAUGCGUAGAUUA ..(((((..((((.(((((((((((((...((((((....))))))...((((.(((((((.((((...(((((.......)))))..)))).....((((((((((...(((((((((((.(((....))).........((((((((((...(((((((((.(((((((((....)).))))))).)))))).........))).))))))))))....))))))))))).))).)))))))....))))))).)))).((((((((...((.(((..(((((((........)))))))..))).))...)))))))).........)))).))))))))).((((((((((((((..((.((((.....)))).))))))))))))))))..))))..)))))........... (-105.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUACGCAUUCCUAAACCUCUAAAGAGGGGAUGUACCCAAACAUUGCGUUUUGACACACACCCCCUCUUUUUUUAUUGCAAUCUCAUACCUGCCGCUCCUACACUGACAUCCUGAAAAAGUUAGAUUCCCCCCUCCUGACUUCCUGGCAGAAGCCCUUCCCUUCCUCAAAUAAAAGUUAUUCAAAAAAAUCAUCGAAUCACGUAUUUUAGAAAAACCUUUCAUACGACAAGUUUUACCUUUUGGAAAACUUUUCACACCUCAUAAAAAUACAUAUCAUUAUAUGUCAACUAACUAAUAACUUUCUAUGGAAAACUUUUCAACAGCUACAUAUUUUUUUGUGAAAUAAUUUAGCAAAGAAAAUAAAGAAUAACUACUUUUGUAGCCUAAAAGACACAACAAAUAAAUAAAGGAAAU ...........(((((........(((((((((.(((..(.((((.....)))).)....))).)))))))))(((((((((((........(((((....(......)...........(((((((...........)))))))...)))))........................((((((((...................(((((((.((((....))))....((.(((((((.((....))))))))).))..........))))))).............................(((((.(((((....)))))...((((..((((((.....))))))...))))..))))).....))))))))....))))))..)))))..................))))).. (-69.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 733 400 351 167 123 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 636 390 344 164 116 tfor:TF0792|5end_pyruvate_ferredoxin;_flavodoxin_oxidoreductase_846454..846684_POSITIVE 594 400 351 211 163 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 592 397 352 175 132 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 511 394 351 228 189 tfor:TF0184|5end_dihydroneopterin_aldolase_195629..195859_POSITIVE 509 386 347 151 114 tfor:TF1024|5end_50S_ribosomal_protein_L19_1081948..1082178_POSITIVE 509 386 347 159 122 tfor:TF0702|5end_possible_peptidyl-prolyl_isomerase_744977..745207_POSITIVE 500 395 351 158 117 tfor:TF1284|5end_glyceraldehyde_3-phosphate_dehydrogenase_1367939..1368169_POSITIVE 463 390 350 229 186 tfor:TF1454|5end_sugar_phosphate_epimerase/isomerase_1539696..1539926_POSITIVE 416 410 361 225 181 tfor:TF1170|5end_conserved_hypothetical_protein_1251862..1252092_POSITIVE 416 410 361 213 169 tfor:TF1171|5end_ABC_transporter,_ATP-binding_protein_1251850..1252080_POSITIVE 405 387 347 166 127 tfor:TF0216|5end_50S_ribosomal_protein_L20_242476..242706_POSITIVE 405 400 351 178 136 tfor:TF0146|5end_glutamine-dependent_NAD(+)_synthetase_154855..155085_POSITIVE 384 381 352 148 120 tfor:TF0797|5end_conserved_hypothetical_protein_853296..853526_POSITIVE 364 399 351 231 190 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 363 398 351 208 159 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 361 287 247 189 148 tfor:TF0712|5end_TPR-repeat-containing_protein_761348..761578_POSITIVE 360 289 256 78 40 tfor:TF0708|5end_possible_alkaline_phosphatase_752173..752403_POSITIVE 359 399 352 203 155 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 356 308 262 219 168 tfor:TF1732|5end_conserved_hypothetical_protein_1854619..1854849_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 594 400 351 65 17 tfor:TF2319|3end_acyl_carrier_protein_2476588..2476738_POSITIVE 511 394 351 47 8 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 463 390 350 110 67 tfor:TF1452|3end_conserved_hypothetical_protein;_possible_transglutaminase-like_enzyme_1539657..1539807_POSITIVE 393 395 352 114 74 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 364 399 351 68 27 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 363 398 351 69 20 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 361 287 247 146 105 tfor:TF0710|3end_two_component_system_histidine_kinase_761385..761535_POSITIVE 360 289 256 78 40 tfor:TF0707|3end_conserved_hypothetical_protein_752253..752403_POSITIVE 348 390 344 63 24 tfor:TF1532|3end_potassium_uptake_system_protein_1639415..1639565_POSITIVE 347 288 252 57 26 tfor:TF2181|3end_conserved_hypothetical_protein_2354963..2355113_POSITIVE 344 394 351 49 9 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 344 360 311 81 21 tfor:TF2512|3end_possible_abortive_infection_protein_2691202..2691352_POSITIVE 337 308 262 67 20 tfor:TF2103|3end_transposase_2275417..2275567_POSITIVE 337 308 262 67 20 tfor:TF0352|3end_transposase_element_371527..371677_POSITIVE 335 288 245 98 52 tfor:TF1209|3end_RNA_polymerase_ECF-type_sigma_factor_1295380..1295530_POSITIVE 334 317 272 66 12 tfor:TF0685|3end_hypothetical_protein_731132..731282_POSITIVE 330 310 263 86 35 tfor:TF0535|3end_surface_antigen_BspA_561701..561851_POSITIVE 329 288 246 56 4 tfor:TF3057|3end_conserved_hypothetical_protein_3281238..3281388_POSITIVE 328 356 311 73 17 tfor:TF2520|3end_conserved_hypothetical_protein_2699824..2699974_POSITIVE 325 281 249 104 70 tfor:TF0991|3end_probable_NAD(FAD)-dependent_dehydrogenase_1048334..1048484_POSITIVE