SEQUENCE_ID=Details of SEQUENCE_OVERLAP_JUNCTION_LIST and PRIMER_MIN_3_PRIME_OVERLAP_OF_JUNCTION TEST 01 -- OVERLAP
P3_COMMENT=The 50th nt is uppercase
PRIMER_NUM_RETURN=1
PRIMER_EXPLAIN_FLAG=1
PRIMER_PRODUCT_SIZE_RANGE=40-100
PRIMER_MIN_GC=0
PRIMER_MIN_TM=0
PRIMER_PICK_ANYWAY=0
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
PRIMER_MIN_3_PRIME_OVERLAP_OF_JUNCTION=2
PRIMER_MIN_5_PRIME_OVERLAP_OF_JUNCTION=2
SEQUENCE_OVERLAP_JUNCTION_LIST=50
PRIMER_TASK=pick_detection_primers
PRIMER_PICK_RIGHT_PRIMER=1
PRIMER_PICK_INTERNAL_OLIGO=0
PRIMER_PICK_LEFT_PRIMER=1
PRIMER_MAX_POLY_X=100
PRIMER_MAX_SELF_ANY=100
PRIMER_MAX_SELF_END=100
PRIMER_FIRST_BASE_INDEX=1
PRIMER_MIN_SIZE=16
SEQUENCE_PRIMER=cttgattcaatgaatctcaa
SEQUENCE_PRIMER_REVCOMP=aaaaaaacacaatccAga
=
SEQUENCE_ID=Details of SEQUENCE_OVERLAP_JUNCTION_LIST and PRIMER_MIN_3_PRIME_OVERLAP_OF_JUNCTION TEST 02 -- OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=cttgattcaatgaatctcaa
SEQUENCE_PRIMER_REVCOMP=aaaaaaacacaatccAg
=
SEQUENCE_ID=Details of SEQUENCE_OVERLAP_JUNCTION_LIST and PRIMER_MIN_3_PRIME_OVERLAP_OF_JUNCTION TEST 03 -- NO OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=cttgattcaatgaatctcaa
SEQUENCE_PRIMER_REVCOMP=aaaaaaacacaatccA
=
SEQUENCE_ID=Details of SEQUENCE_OVERLAP_JUNCTION_LIST and PRIMER_MIN_5_PRIME_OVERLAP_OF_JUNCTION TEST 08 -- OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=ttgttcattctgtttcTgg
SEQUENCE_PRIMER_REVCOMP=catcacacccttttacacatt
=
SEQUENCE_ID=Details of SEQUENCE_OVERLAP_JUNCTION_LIST and PRIMER_MIN_5_PRIME_OVERLAP_OF_JUNCTION TEST 09 -- NO OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=ttgttcattctgtttcTg
SEQUENCE_PRIMER_REVCOMP=catcacacccttttacacatt
=
SEQUENCE_ID=Test for 5' overlap on reverse primer -- OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
PRIMER_MIN_5_PRIME_OVERLAP_OF_JUNCTION=3
SEQUENCE_PRIMER=cttgattcaatgaatctcaa
SEQUENCE_PRIMER_REVCOMP=tccAgaaacagaatgaacaatag
=
SEQUENCE_ID=Test for 5' overlap on reverse primer -- NO OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=cttgattcaatgaatctcaa
SEQUENCE_PRIMER_REVCOMP=ccAgaaacagaatgaacaatag
=
SEQUENCE_ID=Test for 5' overlap on reverse primer  -- NO OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=cttgattcaatgaatctcaa
SEQUENCE_PRIMER_REVCOMP=cAgaaacagaatgaacaatag
=
SEQUENCE_ID=Test for 5' overlap on forward primer  -- OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=tcTggattgtgtttttttc
SEQUENCE_PRIMER_REVCOMP=catcacacccttttacacatt
=
SEQUENCE_ID=Test for 5' overlap on forward primer -- NO OVERLAP
SEQUENCE_TEMPLATE=cttgattcaatgaatctcaaaaatggattactattgttcattctgtttcTggattgtgtttttttcaaagttgaatccaaatgtgtaaaagggtgtgatg
SEQUENCE_OVERLAP_JUNCTION_LIST=50
SEQUENCE_PRIMER=cTggattgtgtttttttc
SEQUENCE_PRIMER_REVCOMP=catcacacccttttacacatt
=