PRIMER PICKING RESULTS FOR NM_006162_2p1 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 225 21 65.11 57.14 6.00 0.00 11.00 ggccctgagttcatgggtttc RIGHT PRIMER 721 20 66.25 65.00 7.00 1.00 10.00 AGTTGCAGCTCCGGGAGGAC SEQUENCE SIZE: 1699 INCLUDED REGION SIZE: 1699 PRODUCT SIZE: 497, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 1.00 TARGETS (start, len)*: 269,400 EXCLUDED REGIONS (start, len)*: 0,0 969,730 0 gtgaggacccggccgcctctccctgggaaggacgttcgggggcttgtgctgctgttaggg 60 gaggaggggaggtgggcagtgaggggctcacgggagccttgttggccaggtgggactggg 120 gctgtcactccaagtcgcccggagctgtccggcagcgtggtctcagggacgtttgctgag 180 gcccgctccttggggtccgttggtcgaggccgggggttgctggccggccctgagttcatg >>>>>>>>>>>>>>> 240 ggtttctgctttgtgatgcccagcccctcatgctcccatctgcttctttttctctctagA >>>>>> ******************************* 300 ACACTATGGCTATGCATCCTCCAACGTCAGCCCCGCCCTGCCGCTCCCCACGGCGCACTC ************************************************************ 360 CACCCTGCCGGCCCCGTGCCACAACCTTCAGACCTCCACACCGGGCATCATCCCGCCGGC ************************************************************ 420 GGATCACCCCTCGGGGTACGGAGCAGCTTTGGACGGTGGGCCCGCGGGCTACTTCCTCTC ************************************************************ 480 CTCCGGCCACACCAGGCCTGATGGGGCCCCTGCCCTGGAGAGTCCTCGCATCGAGATAAC ************************************************************ 540 CTCGTGCTTGGGCCTGTACCACAACAATAACCAGTTTTTCCACGATGTGGAGGTGGAAGA ************************************************************ 600 CGTCCTCCCTAGCTCCAAACGGTCCCCCTCCACGGCCACGCTGAGTCTGCCCAGCCTGGA ************************************************************ 660 GGCCTACAGAGACCCCTCGTGCCTGAGCCCGGCCAGCAGCCTGTCCTCCCGGAGCTGCAA ********* <<<<<<<<<<<<<<<<<< 720 CTCAGAGGCCTCCTCCTACGAGTCCAACTACTCGTACCCGTACGCGTCCCCCCAGACGTC << 780 GCCATGGCAGTCTCCCTGCGTGTCTCCCAAGACCACGGACCCCGAGGAGGGCTTTCCCCG 840 CGGGCTGGGGGCCTGCACACTGCTGGGTTCCCCGCGGCACTCCCCCTCCACCTCGCCCCG 900 CGCCAGCGTCACTGAGGAGAGCTGGCTGGGTGCCCGCTCCTCCAGACCCGCGTCCCCTTG 960 CAACAAGAGGAAGTACAGCCTCAACGGCCGGCAGCCGCCCTACTCACCCCACCACTCGCC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1020 CACGCCGTCCCCGCACGGCTCCCCGCGGGTCAGCGTGACCGACGACTCGTGGTTGGGCAA XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1080 CACCACCCAGTACACCAGCTCGGCCATCGTGGCCGCCATCAACGCGCTGACCACCGACAG XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1140 CAGCCTGGACCTGGGAGATGGCGTCCCTGTCAAGTCCCGCAAGACCACCCTGGAGCAGCC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1200 GCCCTCAGTGGCGCTCAAGGTGGAGCCCGTCGGGGAGGACCTGGGCAGCCCCCCGCCCCC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1260 GGCCGACTTCGCGCCCGAAGACTACTCCTCTTTCCAGCACATCAGGAAGGGCGGCTTCTG XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1320 CGACCAGTACCTGGCGGTGCCGCAGCACCCCTACCAGTGGGCGAAGCCCAAGCCCCTGTC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1380 CCCTACGTCCTACATGAGgtgagccggcagcgcggggcgggacggggaggcgaggggagg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1440 cgcggggcggggcggaacgcggggagcgggacggggggcggcgcggggcggccgtgtctg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1500 gggacgagagtcaggacctgggtgggcaggtgggctcctcgtggagctgggaggcagagt XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1560 ctgtccccatgtctgcctcctcatgcagacttttccttgtgcgcctcgcctctgcctccg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1620 tctgcgcgtttcccatctgaagtctccagatcctctcgggccctgctgatggcctcgtgt XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1680 tcgctcagtctctgcaaac XXXXXXXXXXXXXXXXXXX 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 225 21 65.11 57.14 6.00 0.00 11.00 ggccctgagttcatgggtttc RIGHT PRIMER 721 19 65.65 63.16 7.00 3.00 11.00 AGTTGCAGCTCCGGGAGGA PRODUCT SIZE: 497, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 2.00 2 LEFT PRIMER 226 22 65.21 54.55 6.00 1.00 12.00 gccctgagttcatgggtttctg RIGHT PRIMER 721 20 66.25 65.00 7.00 1.00 10.00 AGTTGCAGCTCCGGGAGGAC PRODUCT SIZE: 496, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 1.00 3 LEFT PRIMER 227 22 65.21 54.55 6.00 2.00 11.00 ccctgagttcatgggtttctgc RIGHT PRIMER 721 20 66.25 65.00 7.00 1.00 10.00 AGTTGCAGCTCCGGGAGGAC PRODUCT SIZE: 495, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 1.00 4 LEFT PRIMER 228 23 63.86 47.83 4.00 0.00 12.00 cctgagttcatgggtttctgctt RIGHT PRIMER 721 19 65.65 63.16 7.00 3.00 11.00 AGTTGCAGCTCCGGGAGGA PRODUCT SIZE: 494, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 1.00 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 1554 0 0 0 1162 0 0 0 8 63 26 0 51 244 Right 2586 0 0 730 1515 0 0 0 10 161 18 0 45 107 Pair Stats: considered 12706, unacceptable product size 12502, tm diff too large 197, ok 7 primer3 release 1.0