Origin IGS: accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta .........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 taatgtcagcacaaggagaaaagtttgtctttttttattattttttccttcaaataaagctcaaagtcaaaaaaaatcgtttactttgtaccattggaagataatgtatgggaaaaaccccataaaaaacagcgtaatggaattgacaaaagacacaaacgaaacaggccaaacggaaatgacccaaatgcctgatgccctttctgcccagcagccgtctgaaaacgtcgcagagagttctgaaatcgtgcaagagcaagaaaatgccatggaagagaagccggcagaagctatgcatgacatcacccttgatgaagcatcggtacaaaaagagcccgagatgaaagaactcccgacaacccccgacgacttttgcggcgaactgcaggaggccattgaagtcggcgccatcggt Mask Tandem Repeat Region ================================================ accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta Find is-nt database================================================ Query_seq: TF2900:TF2901|TF2900:TF2901:conserved hypothetical protein:conserved hypothetical protein:->->:3090090..3090504 415 accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2900:TF2901|TF2900:TF2901:conserved hypothetical protein:conserved hypothetical protein:->->:3090090..3090504 415 accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2900:TF2901|TF2900:TF2901:conserved hypothetical protein:conserved hypothetical protein:->->:3090090..3090504 415 accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 129 End: 332 ................................................................................................................................ M P A S L P W H F L A L A R F Q N S L R R F Q T A A G Q K G H Q A F G S F P F G L F R L C L L S I P L R C F L W G F S H ................................................................................... Protein_Len: 60 Strand: + Start: 5 End: 346 .... M A P T S M A S C S S P Q K S S G V V G S S F I S G S F C T D A S S R V M S C I A S A G F S S M A F S C S C T I S E L S ..................................................................... Protein_Len: 60 Strand: + Start: 28 End: 363 ........................... M Q F A A K V V G G C R E F F H L G L F L Y R C F I K G D V M H S F C R L L F H G I F L L L H D F R T L C D V F R R L L .................................................... Protein_Len: 33 Strand: - Start: 315 End: 413 .......................................................................................................................................................................................................................................................................................................................... R G I T C L L R N K K V K L K I Q L F F Y Y F F V F K E G Q A S M .. Protein_Len: 39 Strand: - Start: 224 End: 340 ............................................................................................................................................................................................................................... A N P D N G N P R N R K H R K D I G N R Q K K H P K E W V N D E L P V F Y V M ........................................................................... Protein_Len: 50 Strand: - Start: 75 End: 224 .......................................................................... R P S K K Y R H K M L P S T M C L K Q R S R K W P M K K S K C S K L V R Q S T K L R S S P L F P M M ............................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 1 End: 330 N E Q E Q V I E S S E A V N E S P Q Q A S L A D P M Q T M E T Q G T E N T D K T L E M V S N K I P N K G Y M I K W H Y M ..................................................................................... accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta 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================================================ accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2900:TF2901|TF2900:TF2901:conserved hypothetical protein:conserved hypothetical protein:->->:3090090..3090504 415 accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaaggaaaaaataataaaaaaagacaaacttttctccttgtgctgacatta Intra-Species Hit: Count: 1 Min: 1 Max: 415 Len: 415 Subject: tfor_TF2900_TF2901|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[3090090,3090504]|415 HSP 1 e-value: 0.0 bit: 684.0 Len: 369 Query Start:1 Query End:369 Subject Strand: POSITIVE Subject Start: 1 Subject End: 369 accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgannnnnnnngactttgagctttatttgaagg.............................................. accgatggcgccgacttcaatggcctcctgcagttcgccgcaaaagtcgtcgggggttgtcgggagttctttcatctcgggctctttttgtaccgatgcttcatcaagggtgatgtcatgcatagcttctgccggcttctcttccatggcattttcttgctcttgcacgatttcagaactctctgcgacgttttcagacggctgctgggcagaaagggcatcaggcatttgggtcatttccgtttggcctgtttcgtttgtgtcttttgtcaattccattacgctgttttttatggggtttttcccatacattatcttccaatggtacaaagtaaacgattttttttgactttgagctttatttgaagg.............................................. HSP 2 e-value: 3.0E-7 bit: 58.0 Len: 29 Query Start:387 Query End:415 Subject Strand: POSITIVE Subject Start: 387 Subject End: 415 ..................................................................................................................................................................................................................................................................................................................................................................................................gacaaacttttctccttgtgctgacatta ..................................................................................................................................................................................................................................................................................................................................................................................................gacaaacttttctccttgtgctgacatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCGAUGGCGCCGACUUCAAUGGCCUCCUGCAGUUCGCCGCAAAAGUCGUCGGGGGUUGUCGGGAGUUCUUUCAUCUCGGGCUCUUUUUGUACCGAUGCUUCAUCAAGGGUGAUGUCAUGCAUAGCUUCUGCCGGCUUCUCUUCCAUGGCAUUUUCUUGCUCUUGCACGAUUUCAGAACUCUCUGCGACGUUUUCAGACGGCUGCUGGGCAGAAAGGGCAUCAGGCAUUUGGGUCAUUUCCGUUUGGCCUGUUUCGUUUGUGUCUUUUGUCAAUUCCAUUACGCUGUUUUUUAUGGGGUUUUUCCCAUACAUUAUCUUCCAAUGGUACAAAGUAAACGAUUUUUUUUGACUUUGAGCUUUAUUUGAAGGAAAAAAUAAUAAAAAAAGACAAACUUUUCUCCUUGUGCUGACAUUA .((((((((((((.......))))....(((.(....).)))...))))))))..(((((.(((((((((.((...((((((.......)).)))).((.....((((((.(((((((((...((((......)))).......))))))))))))))).....))..))....))))))))).))))).........((((.((.(((.(((((((....(((((...((((.....))))....))))).........((((((((.......................(((((((....))))))).....(((((.((((((.((((((...(((......))))))))).)))..))).))))).............))))))))..)))))))))).))))))...... (-116.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGUCAGCACAAGGAGAAAAGUUUGUCUUUUUUUAUUAUUUUUUCCUUCAAAUAAAGCUCAAAGUCAAAAAAAAUCGUUUACUUUGUACCAUUGGAAGAUAAUGUAUGGGAAAAACCCCAUAAAAAACAGCGUAAUGGAAUUGACAAAAGACACAAACGAAACAGGCCAAACGGAAAUGACCCAAAUGCCUGAUGCCCUUUCUGCCCAGCAGCCGUCUGAAAACGUCGCAGAGAGUUCUGAAAUCGUGCAAGAGCAAGAAAAUGCCAUGGAAGAGAAGCCGGCAGAAGCUAUGCAUGACAUCACCCUUGAUGAAGCAUCGGUACAAAAAGAGCCCGAGAUGAAAGAACUCCCGACAACCCCCGACGACUUUUGCGGCGAACUGCAGGAGGCCAUUGAAGUCGGCGCCAUCGGU ...((((((...((((((((((...((........))...))))))))))...........((((((.(((........)))))))))..((((((..........((((((......))))))..........))))))..))))))...........(((..(((((.....((......)).....)))))..(((....((...(((..(((..(((....((((((((((((((((....(((((((..(((.......((((..((........))))))...))).)))))))(((((....)))))...(((((((.(.....).)))...))))..))))))).((........))......))))))))).....)))..)))..))).))..)))....))).. (-101.55) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 463 58 11 110 60 tfor:TF2017|5end_conserved_hypothetical_protein_2173504..2173734_POSITIVE 429 148 101 70 22 tfor:TF2472|5end_GAF_domain-containing_protein_2649918..2650148_POSITIVE 426 50 1 213 157 tfor:TF2775|5end_conserved_hypothetical_protein;_possible_mucoidy_inhibitor-related_protein_2959668..2959898_POSITIVE 415 43 3 178 129 tfor:TF0992|5end_hypothetical_protein_1048251..1048481_POSITIVE 413 100 51 201 149 tfor:TF2937|5end_translation_elongation_factor_Tu_3139238..3139468_POSITIVE 408 236 197 176 131 tfor:TF2670|5end_hypothetical_protein_2842779..2843009_POSITIVE 408 236 197 190 145 tfor:TF2666|5end_hypothetical_protein_2841818..2842048_POSITIVE 404 239 199 74 27 tfor:TF2895|5end_hypothetical_protein_3083936..3084166_POSITIVE 402 49 2 83 30 tfor:TF3111|5end_hypothetical_protein_3346601..3346831_POSITIVE 401 50 5 83 24 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 400 250 201 157 104 tfor:TF2855|5end_ATPase,_AAA_family_3040657..3040887_POSITIVE 399 49 2 169 118 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 399 249 201 216 170 tfor:TF0618|5end_shikimate_5-dehydrogenase_653203..653433_POSITIVE 397 67 23 231 180 tfor:TF2636|5end_glutaminase_2806096..2806326_POSITIVE 397 53 11 52 4 tfor:TF1064|5end_ampG_permease_1134004..1134234_POSITIVE 397 80 35 63 14 tfor:TF0888|5end_transfer_region-related_protein,_TraN_938392..938622_POSITIVE 396 50 2 67 3 tfor:TF2898|5end_conserved_hypothetical_protein_3087061..3087291_POSITIVE 395 90 42 75 19 tfor:TF1603|5end_RNA_polymerase_ECF-type_sigma_factor_1717176..1717406_POSITIVE 392 139 93 222 159 tfor:TF0988|5end_conserved_hypothetical_protein;_possible_nucleotidyltransferase_1044463..1044693_POSITIVE 391 66 23 209 153 tfor:TF1264|5end_possible_transposase_1351290..1351520_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 428 50 2 146 98 tfor:TF1443|3end_hypothetical_protein_1528203..1528353_POSITIVE 408 236 197 50 5 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 402 69 22 106 54 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 400 250 201 145 92 tfor:TF2853|3end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040725..3040875_POSITIVE 389 79 31 109 55 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 387 52 11 124 85 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 386 98 52 47 7 tfor:TF1160|3end_MutT/nudix_family_protein_1241008..1241158_POSITIVE 385 67 21 75 24 tfor:TF2846|3end_cobyric_acid_synthase_3036469..3036619_POSITIVE 383 70 25 81 32 tfor:TF1852|3end_prtQ_protein_2006546..2006696_POSITIVE 382 50 2 112 46 tfor:TF0252|3end_hypothetical_protein_283759..283909_POSITIVE 374 68 26 84 24 tfor:TF1868|3end_conserved_hypothetical_protein;_possible_transposase_2023043..2023193_POSITIVE 370 136 94 71 19 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 369 67 21 102 40 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 369 80 32 48 1 tfor:TF1065|3end_conserved_hypothetical_protein_1136628..1136778_POSITIVE 367 117 74 77 34 tfor:TF3013|3end_conserved_hypothetical_protein_3237539..3237689_POSITIVE 363 150 103 54 11 tfor:TF3109|3end_hypothetical_protein_3342803..3342953_POSITIVE 362 62 21 41 1 tfor:TF3135|3end_hypothetical_protein_3370074..3370224_POSITIVE 362 66 21 96 51 tfor:TF3072|3end_conserved_hypothetical_protein_3296083..3296233_POSITIVE 361 50 2 102 48 tfor:TF2132|3end_TIM-barrel_protein,_NifR3_family_2308769..2308919_POSITIVE 361 94 51 59 7 tfor:TF0337|3end_hypothetical_protein_360711..360861_POSITIVE