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lines changed Original file line number Diff line number Diff line change @@ -50,6 +50,19 @@ directory:
5050$ cd ~ /shell_data/untrimmed_fastq
5151```
5252
53+ Let's look for lines that contain ` ACGT ` .
54+
55+ ``` bash
56+ $ grep ACGT SRR098026.fastq
57+ ```
58+
59+ To get only the number of lines with ` ACGT ` , we can use the ` -c ` flag.
60+ This is useful if you are unsure about the number of lines that will be found.
61+
62+ ``` bash
63+ $ grep -c ACGT SRR098026.fastq
64+ ```
65+
5366Suppose we want to see how many reads in our file have really bad segments containing 10 consecutive unknown nucleotides (Ns).
5467
5568::::::::::::::::::::::::::::::::::::::::: callout
Original file line number Diff line number Diff line change 66"episodes/01-introduction.md" "c0f3f85bf71bfaf19c2b3507d0207378" "site/built/01-introduction.md" "2023-08-15"
77"episodes/02-the-filesystem.md" "70b53ce6f53a88f931e492d876c60fa1" "site/built/02-the-filesystem.md" "2023-05-08"
88"episodes/03-working-with-files.md" "6989deaa6d2a3b387212bff8b5d104f0" "site/built/03-working-with-files.md" "2023-05-08"
9- "episodes/04-redirection.md" "3f71f2fad3303b1be957191c95bae2f7 " "site/built/04-redirection.md" "2024-03-14 "
9+ "episodes/04-redirection.md" "7af92ffeb1bfdc69057917967d8a51ad " "site/built/04-redirection.md" "2025-05-23 "
1010"episodes/05-writing-scripts.md" "648b54fd474490d69a6177a239be29d3" "site/built/05-writing-scripts.md" "2024-04-17"
1111"episodes/06-organization.md" "6a657fb25cd386f2088145a440f2acc3" "site/built/06-organization.md" "2023-05-08"
1212"instructors/Extra_lesson.md" "e60e20421674d8dc399eefce404e27f9" "site/built/Extra_lesson.md" "2023-05-08"
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