Your Windows cert store contains multiple invalid certificates. The first failing certificate is the custom "MUPCA Root", which looks like a certificate from http://ca.mup.gov.rs/sertifikati.html. The serial number seems to be badly formated or padded. There is nothing we can do about erroneous and bad certificates.

$ openssl x509 -in ca.pem 
unable to load certificate
140613019477824:error:0D0E20DD:asn1 encoding routines:c2i_ibuf:illegal padding:crypto/asn1/a_int.c:187:
140613019477824:error:0D08303A:asn1 encoding routines:asn1_template_noexp_d2i:nested asn1 error:crypto/asn1/tasn_dec.c:627:Field=serialNumber, Type=X509_CINF
140613019477824:error:0D08303A:asn1 encoding routines:asn1_template_noexp_d2i:nested asn1 error:crypto/asn1/tasn_dec.c:627:Field=cert_info, Type=X509
140613019477824:error:0906700D:PEM routines:PEM_ASN1_read_bio:ASN1 lib:crypto/pem/pem_oth.c:33:

$ openssl asn1parse -in ca.pem  
    0:d=0  hl=4 l=1300 cons: SEQUENCE          
    4:d=1  hl=4 l= 764 cons: SEQUENCE          
    8:d=2  hl=2 l=   3 cons: cont [ 0 ]        
   10:d=3  hl=2 l=   1 prim: INTEGER           :02
   13:d=2  hl=2 l=   4 prim: INTEGER           :BAD INTEGER:[00000066]
   19:d=2  hl=2 l=  13 cons: SEQUENCE          
   21:d=3  hl=2 l=   9 prim: OBJECT            :sha1WithRSAEncryption
   32:d=3  hl=2 l=   0 prim: NULL              
   34:d=2  hl=2 l=  83 cons: SEQUENCE          
   36:d=3  hl=2 l=  19 cons: SET               
   38:d=4  hl=2 l=  17 cons: SEQUENCE          
   40:d=5  hl=2 l=   3 prim: OBJECT            :commonName
   45:d=5  hl=2 l=  10 prim: UTF8STRING        :MUPCA Root
   57:d=3  hl=2 l=  29 cons: SET               
   59:d=4  hl=2 l=  27 cons: SEQUENCE          
   61:d=5  hl=2 l=   3 prim: OBJECT            :organizationName
   66:d=5  hl=2 l=  20 prim: UTF8STRING        :MUP Republike Srbije
   88:d=3  hl=2 l=  16 cons: SET               
   90:d=4  hl=2 l=  14 cons: SEQUENCE          
   92:d=5  hl=2 l=   3 prim: OBJECT            :localityName
   97:d=5  hl=2 l=   7 prim: UTF8STRING        :Beograd
  106:d=3  hl=2 l=  11 cons: SET               
  108:d=4  hl=2 l=   9 cons: SEQUENCE          
  110:d=5  hl=2 l=   3 prim: OBJECT            :countryName
  115:d=5  hl=2 l=   2 prim: PRINTABLESTRING   :RS
  119:d=2  hl=2 l=  30 cons: SEQUENCE          
  121:d=3  hl=2 l=  13 prim: UTCTIME           :100227161918Z
  136:d=3  hl=2 l=  13 prim: UTCTIME           :200227161918Z
  ...

$ wget http://ca.mup.gov.rs/MUPCARoot.crt
$ openssl x509 -in MUPCARoot.crt -inform DER
unable to load certificate
140699773712192:error:0D0E20DD:asn1 encoding routines:c2i_ibuf:illegal padding:crypto/asn1/a_int.c:187:
140699773712192:error:0D08303A:asn1 encoding routines:asn1_template_noexp_d2i:nested asn1 error:crypto/asn1/tasn_dec.c:627:Field=serialNumber, Type=X509_CINF
140699773712192:error:0D08303A:asn1 encoding routines:asn1_template_noexp_d2i:nested asn1 error:crypto/asn1/tasn_dec.c:627:Field=cert_info, Type=X509