From 0b5cb417da1d2fef47ff7dcb68268f6ed5c4c049 Mon Sep 17 00:00:00 2001
From: Remi Planel <rplanel@pasteur.fr>
Date: Thu, 16 Apr 2020 17:05:22 +0200
Subject: [PATCH] Upper the off-target sequence
---
crisprbact/off_target.py | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/crisprbact/off_target.py b/crisprbact/off_target.py
index 89a5a64..176c25a 100644
--- a/crisprbact/off_target.py
+++ b/crisprbact/off_target.py
@@ -24,7 +24,7 @@ def get_off_target_pos(guide, records, seed_size):
if records is not None:
offs = iter([])
for rec in records:
- sequence_str = str(rec.seq)
+ sequence_str = str(rec.seq).upper()
seqid = rec.id
offs_plus = re.finditer(guide[-seed_size:] + "[ATGC]GG", sequence_str)
offs_plus = gen_extract_off_target_strand_plus(
--
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