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misc_func.f90
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SUBROUTINE Fix_Degenerates
!
! Fix degenerate sequences to A,C,G or T
USE dnaworks_data
USE dnaworks_test
IMPLICIT NONE
INTEGER :: i,j,k
REAL :: rand
IF (TEST0) PRINT *,"Fix_Degenerates" !TEST0
DO i=1,NumDegPos
! Choose a nt at random from possible
CALL RANDOM_NUMBER(rand)
j = CurrDNA%DegenNum(DegPos(i)) ! index for degenerate sequence
k=(INT(rand*(DegenSeq(j)%NumOfNT)))+1 ! choice for index
CurrDNA%DNAseq(DegPos(i):DegPos(i)) = DegenSeq(j)%Seq(k) ! assign seq
CurrDNA%NumSeq(DegPos(i)) = DegenSeq(j)%NumSeq(k) ! assign NumSeq
END DO
END SUBROUTINE Fix_Degenerates
SUBROUTINE IntSwap(firstelement,lastelement)
! Swap integers
USE dnaworks_test
IMPLICIT NONE
INTEGER :: firstelement,lastelement,dummy
IF (TEST3) PRINT *,"IntSwap" !TEST3
dummy=firstelement
firstelement=lastelement
lastelement=dummy
END SUBROUTINE IntSwap
SUBROUTINE RealSwap(firstelement,lastelement)
! Swap real numbers
USE dnaworks_test
IMPLICIT NONE
REAL :: firstelement,lastelement,dummy
IF (TEST3) PRINT *,"RealSwap" !TEST3
dummy=firstelement
firstelement=lastelement
lastelement=dummy
END SUBROUTINE RealSwap
SUBROUTINE Revert_Degenerates
!
! Revert degenerate sequences back to original
USE dnaworks_data
USE dnaworks_test
IMPLICIT NONE
INTEGER :: i,j
IF (TEST0) PRINT *,"Revert_Degenerates" !TEST0
DO i=1,NumDegPos
j = CurrDNA%DegenNum(DegPos(i)) ! index for degenerate sequence at that position
CurrDNA%DNAseq(DegPos(i):DegPos(i)) = DegenSeq(j)%DegNT ! assign seq
END DO
END SUBROUTINE Revert_Degenerates