diff --git a/src/rsiglobals.h b/src/rsiglobals.h
--- a/src/rsiglobals.h
+++ b/src/rsiglobals.h
@@ -62,6 +62,7 @@
     BIG_BREAK_THRESHOLD,
     POSTPONE_BREAK_INTERVAL,
     PATIENCE_INTERVAL,
+    SHORT_INPUT_INTERVAL,
     INTERVAL_COUNT
 };
 
diff --git a/src/rsiglobals.cpp b/src/rsiglobals.cpp
--- a/src/rsiglobals.cpp
+++ b/src/rsiglobals.cpp
@@ -74,6 +74,7 @@
     m_intervals[BIG_BREAK_THRESHOLD] = config.readEntry( "BigThreshold", 1 ) * 60;
     m_intervals[POSTPONE_BREAK_INTERVAL] = config.readEntry( "PostponeBreakDuration", 5 ) * 60;
     m_intervals[PATIENCE_INTERVAL] = config.readEntry( "Patience", 30 );
+    m_intervals[SHORT_INPUT_INTERVAL] = config.readEntry( "ShortInputInterval", 2 );
 
     if ( config.readEntry( "DEBUG", 0 ) > 0 ) {
         qDebug() << "Debug mode activated";
diff --git a/src/rsitimer.cpp b/src/rsitimer.cpp
--- a/src/rsitimer.cpp
+++ b/src/rsitimer.cpp
@@ -107,6 +107,7 @@
     m_state = TimerState::Resting;
     m_pauseCounter = std::unique_ptr<RSITimerCounter> { new RSITimerCounter( breakTime, breakTime, INT_MAX ) };
     m_popupCounter = nullptr;
+    m_shortInputCounter = std::unique_ptr<RSITimerCounter> { new RSITimerCounter( m_intervals[SHORT_INPUT_INTERVAL], 1, 1 ) };
     if ( nextBreakIsBig ) {
         emit startLongBreak();
     } else {
@@ -271,7 +272,7 @@
     }
     case TimerState::Resting: {
         bool isInputLong = (m_shortInputCounter->tick(idleSeconds) > 0);
-        int inverseTick = ( idleSeconds == 0 && isInputLong > 0 ) ? 1 : 0; // inverting as we account idle seconds here.
+        int inverseTick = ( idleSeconds == 0 && isInputLong ) ? 1 : 0; // inverting as we account idle seconds here.
         int breakTime = m_pauseCounter->tick( inverseTick );
         if ( breakTime > 0 ) {
             resetAfterBreak();
@@ -314,7 +315,7 @@
 
     // For measuring input duration in order to limit influence of short inputs on resetting pause counter.
     // Example of short input is: mouse sent input due to accidental touch or desk vibration.
-    m_shortInputCounter = std::unique_ptr<RSITimerCounter> { new RSITimerCounter( 2, 2, 1 ) };
+    m_shortInputCounter = std::unique_ptr<RSITimerCounter> { new RSITimerCounter( m_intervals[SHORT_INPUT_INTERVAL], 1, 1 ) };
 
     emit relax( breakTime, nextOneIsBig );
 }
diff --git a/test/rsitimer_test.cpp b/test/rsitimer_test.cpp
--- a/test/rsitimer_test.cpp
+++ b/test/rsitimer_test.cpp
@@ -32,6 +32,7 @@
     m_intervals[BIG_BREAK_THRESHOLD] = 5 * 60;
     m_intervals[POSTPONE_BREAK_INTERVAL] = 3 * 60;
     m_intervals[PATIENCE_INTERVAL] = 30;
+    m_intervals[SHORT_INPUT_INTERVAL] = 2;
 }
 
 void RSITimerTest::triggerSimpleTinyBreak()
@@ -168,7 +169,8 @@
 
     int tinyBreaks = m_intervals[BIG_BREAK_INTERVAL] / ( m_intervals[TINY_BREAK_INTERVAL] + m_intervals[PATIENCE_INTERVAL] + m_intervals[TINY_BREAK_DURATION] );
     // We don't tick big pause timer during tiny breaks and patience, so it will actually happen later.
-    int ticks = m_intervals[BIG_BREAK_INTERVAL] + tinyBreaks * ( m_intervals[PATIENCE_INTERVAL] + m_intervals[TINY_BREAK_DURATION] );
+    // In time the patience wears out, the tiny break could already accumulate some seconds due to SHORT_INPUT_INTERVAL filter, so substract them.
+    int ticks = m_intervals[BIG_BREAK_INTERVAL] + tinyBreaks * ( m_intervals[PATIENCE_INTERVAL] + m_intervals[TINY_BREAK_DURATION] - (m_intervals[PATIENCE_INTERVAL] - 1) % m_intervals[SHORT_INPUT_INTERVAL] );
 
     QSignalSpy spyEndLongBreak( &timer, SIGNAL(endLongBreak()) );