PRIMER PICKING RESULTS FOR NM_006162_2p3 Using mispriming library /data/utswmc/elxr/ELXR-main/repbase/humrep_and_simple.fa Using 0-based sequence positions OLIGO start len tm gc% any 3' rep seq LEFT PRIMER 1048 19 62.54 63.16 6.00 2.00 10.00 GTCAGCGTGACCGACGACT RIGHT PRIMER 1522 20 61.12 60.00 7.00 2.00 12.00 acccaggtcctgactctcgt SEQUENCE SIZE: 1699 INCLUDED REGION SIZE: 1699 PRODUCT SIZE: 475, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 2.00 TARGETS (start, len)*: 1069,400 EXCLUDED REGIONS (start, len)*: 0,769 1699,0 0 gtgaggacccggccgcctctccctgggaaggacgttcgggggcttgtgctgctgttaggg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 60 gaggaggggaggtgggcagtgaggggctcacgggagccttgttggccaggtgggactggg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 120 gctgtcactccaagtcgcccggagctgtccggcagcgtggtctcagggacgtttgctgag XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 180 gcccgctccttggggtccgttggtcgaggccgggggttgctggccggccctgagttcatg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 240 ggtttctgctttgtgatgcccagcccctcatgctcccatctgcttctttttctctctagA XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 300 ACACTATGGCTATGCATCCTCCAACGTCAGCCCCGCCCTGCCGCTCCCCACGGCGCACTC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 360 CACCCTGCCGGCCCCGTGCCACAACCTTCAGACCTCCACACCGGGCATCATCCCGCCGGC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 420 GGATCACCCCTCGGGGTACGGAGCAGCTTTGGACGGTGGGCCCGCGGGCTACTTCCTCTC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 480 CTCCGGCCACACCAGGCCTGATGGGGCCCCTGCCCTGGAGAGTCCTCGCATCGAGATAAC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 540 CTCGTGCTTGGGCCTGTACCACAACAATAACCAGTTTTTCCACGATGTGGAGGTGGAAGA XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 600 CGTCCTCCCTAGCTCCAAACGGTCCCCCTCCACGGCCACGCTGAGTCTGCCCAGCCTGGA XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 660 GGCCTACAGAGACCCCTCGTGCCTGAGCCCGGCCAGCAGCCTGTCCTCCCGGAGCTGCAA XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 720 CTCAGAGGCCTCCTCCTACGAGTCCAACTACTCGTACCCGTACGCGTCCCCCCAGACGTC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 780 GCCATGGCAGTCTCCCTGCGTGTCTCCCAAGACCACGGACCCCGAGGAGGGCTTTCCCCG 840 CGGGCTGGGGGCCTGCACACTGCTGGGTTCCCCGCGGCACTCCCCCTCCACCTCGCCCCG 900 CGCCAGCGTCACTGAGGAGAGCTGGCTGGGTGCCCGCTCCTCCAGACCCGCGTCCCCTTG 960 CAACAAGAGGAAGTACAGCCTCAACGGCCGGCAGCCGCCCTACTCACCCCACCACTCGCC 1020 CACGCCGTCCCCGCACGGCTCCCCGCGGGTCAGCGTGACCGACGACTCGTGGTTGGGCAA >>>>>>>>>>>>>>>>>>> *********** 1080 CACCACCCAGTACACCAGCTCGGCCATCGTGGCCGCCATCAACGCGCTGACCACCGACAG ************************************************************ 1140 CAGCCTGGACCTGGGAGATGGCGTCCCTGTCAAGTCCCGCAAGACCACCCTGGAGCAGCC ************************************************************ 1200 GCCCTCAGTGGCGCTCAAGGTGGAGCCCGTCGGGGAGGACCTGGGCAGCCCCCCGCCCCC ************************************************************ 1260 GGCCGACTTCGCGCCCGAAGACTACTCCTCTTTCCAGCACATCAGGAAGGGCGGCTTCTG ************************************************************ 1320 CGACCAGTACCTGGCGGTGCCGCAGCACCCCTACCAGTGGGCGAAGCCCAAGCCCCTGTC ************************************************************ 1380 CCCTACGTCCTACATGAGgtgagccggcagcgcggggcgggacggggaggcgaggggagg ************************************************************ 1440 cgcggggcggggcggaacgcggggagcgggacggggggcggcgcggggcggccgtgtctg ***************************** 1500 gggacgagagtcaggacctgggtgggcaggtgggctcctcgtggagctgggaggcagagt <<<<<<<<<<<<<<<<<<<< 1560 ctgtccccatgtctgcctcctcatgcagacttttccttgtgcgcctcgcctctgcctccg 1620 tctgcgcgtttcccatctgaagtctccagatcctctcgggccctgctgatggcctcgtgt 1680 tcgctcagtctctgcaaac KEYS (in order of precedence): XXXXXX excluded region ****** target >>>>>> left primer <<<<<< right primer ADDITIONAL OLIGOS start len tm gc% any 3' rep seq 1 LEFT PRIMER 1049 18 61.69 61.11 4.00 2.00 10.00 TCAGCGTGACCGACGACT RIGHT PRIMER 1522 20 61.12 60.00 7.00 2.00 12.00 acccaggtcctgactctcgt PRODUCT SIZE: 474, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00 2 LEFT PRIMER 1049 18 61.69 61.11 4.00 2.00 10.00 TCAGCGTGACCGACGACT RIGHT PRIMER 1521 19 60.25 63.16 7.00 2.00 12.00 cccaggtcctgactctcgt PRODUCT SIZE: 473, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00 3 LEFT PRIMER 1048 19 62.54 63.16 6.00 2.00 10.00 GTCAGCGTGACCGACGACT RIGHT PRIMER 1522 21 62.98 61.90 7.00 2.00 12.00 acccaggtcctgactctcgtc PRODUCT SIZE: 475, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00 4 LEFT PRIMER 1049 18 61.69 61.11 4.00 2.00 10.00 TCAGCGTGACCGACGACT RIGHT PRIMER 1522 21 62.98 61.90 7.00 2.00 12.00 acccaggtcctgactctcgtc PRODUCT SIZE: 474, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00 Statistics con too in in no tm tm high high high high sid many tar excl bad GC too too any 3' lib poly end ered Ns get reg GC% clamp low high compl compl sim X stab ok Left 2647 0 0 775 1642 0 0 0 9 83 21 0 41 76 Right 1186 0 0 0 754 0 0 0 5 137 44 0 50 196 Pair Stats: considered 2585, unacceptable product size 2573, tm diff too large 7, ok 5 primer3 release 1.0