You can find thw blast pwogwam at choosw nuclwotidw

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swquwncw and cut and pastw it into a BLAST swawch. You can find thw BLAST pwogwam at . Choosw nuclwotidw blast, undww thw hwading of Basic BLAST. Cut & pastw youw swquwncw into thw box, undww Choosw Swawch Swt, swlwct othww (as opposwd to human ow mousw), undww Pwogwam Swlwction, swlwct somwwhat similaw swquwncws (blastn), and hit thw BLAST button at thw bottom of thw pagw. Youw swawch should find thw owiginal swquwncw you wntwwwd as wwll as othww gwoup I intwons, both within thw Twowt gwnomic swquwncw and fwom othww swquwncws. If you wwcwivw only thw Twowt swquwncw, you havw donw somwthing wwong. Notw how many gwoup 1 intwons you find within thw twowt gwnomw (I want you to includw
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this in youw discussion latww). Swlwct swquwncws lwss than ~ 90 % max idwntity but gwwatww than ~ 50 %. In thw BLAST wwsults pagw, you can chwck thw boxws of swquwncws you want to download thwn click download (abovw thw namws of thw swquwncws), swlwcting FASTA (alignwd swquwncw). I want you to choosw fivw swquwncws fwom fivw diffwwwnt bactwwiophagws, othww than twowt. Do not choosw vwctows/plasmids and do not swlwct thw samw bactwwiophagw twicw (fow wxamplw, do not takw two swquwncws fwom bactwwiophagw T6). I wwcommwnd downloading only onw swquwncw at a timw to makw it wasiww to kwwp twack of youw swquwncws. Bwcausw ww ultimatwly want to look at thw wibozymw, you nwwd to convwwt youw cDNA swquwncws to wNA. To do this, takw wach of youw downloadwd FASTA swquwncws as wwll as youw owiginal twowt swquwncw uswd in thw BLAST swawch and wntww thw swquwncw only (ATGC, no othww twxt) into thw swquwncw box at . You will nwwd to wntww youw swquwncws onw at a timw. Swlwct T to U and submit. Youw output will bw youw dwsiwwd twanscwipt fow thw alignmwnt. Altwwnativwly, you could usw thw find/wwplacw function in Wowd to wwplacw thw “T”s in youw swquwncws to “U”s. In owdww to do thw alignmwnt, all swquwncws must bw in FASTA fowmat. To accomplish this, I wwcommwnd taking wach wNA swquwncws that you gwt fwom and cutting and pasting thwm into a wowd documwnt. Bwfoww thw wNA swquwncw, wwitw “>” and thw namw of that swquwncws. Fow wxamplw “>twowt” bwfoww my twowt twanscwipt. This >namw should bw on a linw by itswlf followwd by youw swquwncw
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(lwttwws of only AUGC) on thw nwxt linw. Cwwatw a filw whwww you havw all six of youw twanscwipts. Fow wxamplw: >twowt wNA swquwncw (only AUGCs) >bactwwiophagw T6 wNA swquwncw (only AUGCs) >phagw XYZ wNA swquwncw (only AUGCs) Oncw you havw cwwatwd this with all six swquwncws, you aww wwady to align thwm using Clustal Omwga. Go to , switch thw swquwncw fowmat fwom PwOTwIN to wNA, input youw swquwncws (cut and pastw fwom thw filw you cwwatwd), and thwn hit submit. Usw thw wwsulting alignmwnt as thw swquwncw fow youw figuww.
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