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comparison CSP2/CSP2_env/env-d9b9114564458d9d-741b3de822f2aaca6c6caa4325c4afce/opt/mummer-3.23/scripts/tandem-repeat.awk @ 69:33d812a61356

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planemo upload commit 2e9511a184a1ca667c7be0c6321a36dc4e3d116d
author jpayne
date Tue, 18 Mar 2025 17:55:14 -0400
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67:0e9998148a16 69:33d812a61356
1 # Usage: awk -f tandem-repeat.awk
2 # Outputs tandem repeat regions based on repeat matches found
3 # by repeat-match program. That program should be run with
4 # the -t option (for tandem repeats) or at least the -f
5 # option (fo forward strand only), and the output
6 # sorted by first and then second column (with the first two
7 # header lines removed).
8
9 BEGIN {
10 printf "%8s %8s %8s %10s\n", "Start", "Extent", "UnitLen", "Copies";
11 }
12
13 {
14 if ($1 + $3 < $2)
15 next;
16 if ($1 == prev)
17 next;
18 start = $1;
19 extent = $2 + $3 - $1;
20 unitlen = $2 - $1;
21 printf "%8d %8d %8d %10.1f\n", start, extent, unitlen, extent / unitlen;
22 prev = $1;
23 }