diff --git a/ChangeLog.md b/ChangeLog.md
--- a/ChangeLog.md
+++ b/ChangeLog.md
@@ -2,6 +2,10 @@
 
 ## [Unreleased]
 
+## [0.1.3.5] - 2020-05-26
+### Fixed
+- Correctly clean `BasecalledSequenceWithRawData`, including inner quality.
+
 ## [0.1.3.4] - 2020-05-14
 ### Added
 - `instance Cleanable BasecalledSequenceWithRawData`.
diff --git a/cobot-io.cabal b/cobot-io.cabal
--- a/cobot-io.cabal
+++ b/cobot-io.cabal
@@ -4,10 +4,10 @@
 --
 -- see: https://github.com/sol/hpack
 --
--- hash: 05e68567b67639441d54b7151e50e0999a951e1a25a719e0ec4e701057148753
+-- hash: b0510489dd9464931b8c53a26aa6930076e89ad4e6b1416041edb9cae7dd219b
 
 name:           cobot-io
-version:        0.1.3.4
+version:        0.1.3.5
 synopsis:       Biological data file formats and IO
 description:    Please see the README on GitHub at <https://github.com/biocad/cobot-io#readme>
 category:       Bio
diff --git a/src/Bio/ABI/Clean.hs b/src/Bio/ABI/Clean.hs
--- a/src/Bio/ABI/Clean.hs
+++ b/src/Bio/ABI/Clean.hs
@@ -80,6 +80,7 @@
     let rightDroppedSequ = S.take (S.length leftDroppedSequ - toDropRight) leftDroppedSequ
     let rightDroppedPloc = V.take (V.length leftDroppedPloc - toDropRight) leftDroppedPloc
 
+    guard $ checkInner thr rightDroppedSequ
     return input { bsSequence = rightDroppedSequ, bsPeakLocations = rightDroppedPloc }
 
 -------------------------------------------------------------------------------
diff --git a/test/ABISpec.hs b/test/ABISpec.hs
--- a/test/ABISpec.hs
+++ b/test/ABISpec.hs
@@ -56,6 +56,10 @@
     it "clean with raw data is the same as without" $ do
       Right bsWithRaw <- decodeRawSequence <$> BSL.readFile "test/ABI/bad_at_the_end.ab1"
       bsSequence <$> clean bsWithRaw `shouldBe` clean (bsSequence bsWithRaw)
+
+    it "totally clean bad ABI file with raw data" $ do
+      Right bsWithRaw <- decodeRawSequence <$> BSL.readFile "test/ABI/bad_quality.ab1"
+      clean bsWithRaw `shouldBe` Nothing
   where
     checkFile :: FilePath -> Int -> Int -> String -> IO ()
     checkFile path lengthBefore lengthAfter start = do