PRIMER PICKING RESULTS FOR NM_000438_1p1 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 235 20 57.06 40.00 6.00 0.00 12.00 ccaagctttgggtaaaagaa RIGHT PRIMER 734 18 57.02 61.11 8.00 2.00 11.00 CTACGCGGGTAGTTCTGC SEQUENCE SIZE: 1051 INCLUDED REGION SIZE: 1051 PRODUCT SIZE: 500, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00 TARGETS (start, len)*: 269,400 EXCLUDED REGIONS (start, len)*: 0,0 969,82 0 aggaacttctccgccctcagcaactgccatctccctggggctgtctctctcagtttccac 60 cgggccaaccttctctcctgggcaaggggcgcagcgcgggtccccctcggggccagcaga 120 ggcctcggcaccaccagagatgggaagagaaagtggtcgctgttgcccaatcagcgcgtg 180 tctccgccacccgggacggtctacccgtcggccaatcgcagctcagggctcctgaccaag >>>>> 240 ctttgggtaaaagaactaataaatgctcccgagcccggatccccgcactcggtgtcacca >>>>>>>>>>>>>>> ******************************* 300 cAGGAGGAGACTCAGGCAGGCCGCGCTCCAGCCTCACCAGGCTCCCCGGCTCGCCGTGGC ************************************************************ 360 TCTCTGAGCCCCCTTTTCAGGGACCCCAGTCGCTGGAACATTTGCCCAGACTCGTACCAA ************************************************************ 420 ACTTTTCCGCCCTGGGCTCGGGATCCTGGACTCCGGGGCCTCCCCGTCCTCCCCTTTCCC ************************************************************ 480 GGGTTCCAGCTCCGGCCTCTGGACTAGGAACCGACAGCCCCCCTCCCCGCGTCCCTCCCT ************************************************************ 540 CTCTCTCCAGCCGTTTTGGGGAGGGGCTCTCCACGCTCCGGATAGTTCCCGAGGGTCATC ************************************************************ 600 CGCGCCGCACTCGCCTTTCCGTTTCGCCTTCACCTGGATATAATTTCCGAGCGAAGCTGC ************************************************************ 660 CCCCAGGATGACCACGCTGGCCGGCGCTGTGCCCAGGATGATGCGGCCGGGCCCGGGGCA ********* <<< 720 GAACTACCCGCGTAGCGGGTTCCCGCTGGAAGgtaagggagggcctcagcgcgccgcctg <<<<<<<<<<<<<<< 780 gatcccagggcctgggaccggctgcctcaccccatccccaggctccgcaggctcctttgg 840 tgcttccaggaagcccattccctgggcaccccacaccccaagaagcaccagtcgggggcg 900 aggacctactcgatttcctttctgcaaatggagcgcgctgctctctgcaaatcctggcgg 960 agctgggcggtcaggcctgcggcgagccggggagacttgtccctgttgttttggaaatgc XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1020 cgcggtggagaaggaggtgaaccggcttctg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 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 236 24 57.35 33.33 6.00 2.00 12.00 caagctttgggtaaaagaactaat RIGHT PRIMER 734 18 57.02 61.11 8.00 2.00 11.00 CTACGCGGGTAGTTCTGC PRODUCT SIZE: 499, PAIR ANY COMPL: 7.00, PAIR 3' COMPL: 3.00 2 LEFT PRIMER 235 19 55.54 42.11 6.00 1.00 11.00 ccaagctttgggtaaaaga RIGHT PRIMER 734 18 57.02 61.11 8.00 2.00 11.00 CTACGCGGGTAGTTCTGC PRODUCT SIZE: 500, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 1.00 3 LEFT PRIMER 236 25 57.44 32.00 6.00 3.00 12.00 caagctttgggtaaaagaactaata RIGHT PRIMER 734 18 57.02 61.11 8.00 2.00 11.00 CTACGCGGGTAGTTCTGC PRODUCT SIZE: 499, PAIR ANY COMPL: 7.00, PAIR 3' COMPL: 2.00 4 LEFT PRIMER 236 25 57.44 32.00 6.00 3.00 12.00 caagctttgggtaaaagaactaata RIGHT PRIMER 735 18 57.02 61.11 8.00 1.00 12.00 GCTACGCGGGTAGTTCTG PRODUCT SIZE: 500, PAIR ANY COMPL: 7.00, 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 1444 0 0 0 830 0 0 0 1 147 35 0 61 370 Right 1793 0 0 89 1237 0 0 0 18 202 22 0 63 162 Pair Stats: considered 29841, unacceptable product size 29730, tm diff too large 97, high end compl 9, ok 5 primer3 release 1.0