Origin IGS: aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagttcccgaactgctgcattctccacccaatttaacggatgcacttcctcatcttatcggcttacccgcgcttcaccggaaaccgccatcaaagcctctcaccgtttctcctgtataattttggcgctcatttaatatttttctattt Mask Tandem Repeat Region ================================================ aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Find is-nt database================================================ Query_seq: TF2809:TF2810|TF2809:TF2810:conserved hypothetical protein; possible translation factor (SUA5):conserved hypothetical protein:->->:3000572..3000722 151 aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2809:TF2810|TF2809:TF2810:conserved hypothetical protein; possible translation factor (SUA5):conserved hypothetical protein:->->:3000572..3000722 151 aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2809:TF2810|TF2809:TF2810:conserved hypothetical protein; possible translation factor (SUA5):conserved hypothetical protein:->->:3000572..3000722 151 aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 34 End: 138 ................................. V P S V T L P K S P P K R H L A P L G I L H P L A D T L N P P S H L M ............. Protein_Len: 36 Strand: - Start: 3 End: 110 .. Y F F I L H A G F N Y L L F P S L S Q H R N G T F R P Y A S L I L F H M ......................................... aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta 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================================================ aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2809:TF2810|TF2809:TF2810:conserved hypothetical protein; possible translation factor (SUA5):conserved hypothetical protein:->->:3000572..3000722 151 aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Intra-Species Hit: Count: 1 Min: 1 Max: 151 Len: 151 Subject: tfor_TF2809_TF2810|conserved hypothetical protein; possible translation factor (SUA5):conserved hypothetical protein|POSITIVE:POSITIVE|[3000572,3000722]|151 HSP 1 e-value: 1.0E-80 bit: 299.0 Len: 151 Query Start:1 Query End:151 Subject Strand: POSITIVE Subject Start: 1 Subject End: 151 aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta aaatagaaaaatattaaatgagcgccaaaattatacaggagaaacggtgagaggctttgatggcggtttccggtgaagcgcgggtaagccgataagatgaggaagtgcatccgttaaattgggtggagaatgcagcagttcgggaacttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAGAAAAAUAUUAAAUGAGCGCCAAAAUUAUACAGGAGAAACGGUGAGAGGCUUUGAUGGCGGUUUCCGGUGAAGCGCGGGUAAGCCGAUAAGAUGAGGAAGUGCAUCCGUUAAAUUGGGUGGAGAAUGCAGCAGUUCGGGAACUUUA ...........(((((((.....(((....((((...(......).))))..)))))))))).((((((((.(((...))).)).))))))..........(((((.((((((......))))))..((((......))))....))))). (-29.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGUUCCCGAACUGCUGCAUUCUCCACCCAAUUUAACGGAUGCACUUCCUCAUCUUAUCGGCUUACCCGCGCUUCACCGGAAACCGCCAUCAAAGCCUCUCACCGUUUCUCCUGUAUAAUUUUGGCGCUCAUUUAAUAUUUUUCUAUUU ...(((..(((((....(((((((...............)))))))...............(((((....(((.(((....)))..))).....))))).......................))))).))).................... (-19.86) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 455 97 53 156 113 tfor:TF2670|5end_hypothetical_protein_2842779..2843009_POSITIVE 455 97 53 170 127 tfor:TF2666|5end_hypothetical_protein_2841818..2842048_POSITIVE 418 97 52 228 170 tfor:TF2188|5end_conserved_hypothetical_protein_2362652..2362882_POSITIVE 405 90 45 162 106 tfor:TF1070|5end_hydrolase_1139704..1139934_POSITIVE 404 85 41 57 14 tfor:TF0620|5end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_654711..654941_POSITIVE 400 126 81 193 147 tfor:TF2215|5end_conserved_hypothetical_protein_2387501..2387731_POSITIVE 397 84 45 166 119 tfor:TF2518|5end_ATP-dependent_DNA_helicase_2695541..2695771_POSITIVE 396 90 45 133 65 tfor:TF2229.1|5end_rteR_regulatory_ortholog_(with_internal_stop)_2399454..2399684_POSITIVE 396 90 46 169 112 tfor:TF2200|5end_outer_membrane_protein,_TonB_dependent_receptor_2376495..2376725_POSITIVE 394 108 64 102 54 tfor:TF0619|5end_ubiquinone_biosynthesis_methyltransferase_653943..654173_POSITIVE 393 128 81 62 8 tfor:TF0094|5end_alpha-glucosidase_103561..103791_POSITIVE 387 100 52 229 165 tfor:TF2849|5end_histidinol-phosphate_transaminase_3037288..3037518_POSITIVE 386 90 45 203 139 tfor:TF0955|5end_conserved_hypothetical_protein_999215..999445_POSITIVE 383 84 53 230 199 tfor:TF2667|5end_hypothetical_protein_2842395..2842625_POSITIVE 383 88 44 225 181 tfor:TF1018|5end_50S_ribosomal_protein_L9_1074815..1075045_POSITIVE 382 83 41 142 95 tfor:TF0265|5end_conserved_hypothetical_protein,_Rhs_family_293279..293509_POSITIVE 373 89 47 217 160 tfor:TF0346|5end_hypothetical_protein_367048..367278_POSITIVE 371 89 47 218 174 tfor:TF1974|5end_glyoxalase_I_related_protein_(lactoylglutathione_lyase)_2120950..2121180_POSITIVE 371 90 43 66 5 tfor:TF1421|5end_UDP-N-acetylmuramate--alanine_ligase_1503465..1503695_POSITIVE 371 100 55 65 13 tfor:TF0066|5end_conserved_hypothetical_protein_70729..70959_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 459 97 53 123 80 tfor:TF2921|3end_hypothetical_protein_3118790..3118940_POSITIVE 455 97 53 123 80 tfor:TF2438|3end_hypothetical_protein_2616157..2616307_POSITIVE 455 97 53 123 80 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 443 97 52 123 79 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 432 97 53 123 80 tfor:TF0468|3end_hypothetical_protein_487188..487338_POSITIVE 404 85 41 47 4 tfor:TF0619|3end_ubiquinone_biosynthesis_methyltransferase_654781..654931_POSITIVE 399 89 46 148 104 tfor:TF0685|3end_hypothetical_protein_731132..731282_POSITIVE 394 108 64 102 54 tfor:TF0618|3end_shikimate_5-dehydrogenase_654023..654173_POSITIVE 394 84 43 151 106 tfor:TF0469|3end_hypothetical_protein_487228..487378_POSITIVE 380 84 46 148 109 tfor:TF0815|3end_conserved_hypothetical_protein_873974..874124_POSITIVE 371 90 43 66 5 tfor:TF1420|3end_cell_division_protein_1503545..1503695_POSITIVE 371 100 55 56 4 tfor:TF0065|3end_conserved_hypothetical_protein_70800..70950_POSITIVE 367 94 59 116 76 tfor:TF1559|3end_glycosyltransferase_1667074..1667224_POSITIVE 365 100 54 94 40 tfor:TF0961|3end_translation_initiation_inhibitor,_endoribonuclease_activity_1011673..1011823_POSITIVE 364 90 45 80 28 tfor:TF2789|3end_enoyl-[acyl-carrier-protein]_reductase_2973365..2973515_POSITIVE 363 85 41 131 97 tfor:TF0795|3end_hypothetical_protein_853199..853349_POSITIVE 358 80 32 151 100 tfor:TF1253|3end_hypothetical_protein_1336211..1336361_POSITIVE 357 80 36 99 57 tfor:TF0252|3end_hypothetical_protein_283759..283909_POSITIVE 354 89 41 149 101 tfor:TF2673|3end_conserved_hypothetical_protein_2848272..2848422_POSITIVE 353 115 74 112 57 tfor:TF0600|3end_oxidoreductase/dehydrogenase_631161..631311_POSITIVE