PRIMER PICKING RESULTS FOR NM_000438_4p2 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 593 23 59.64 43.48 4.00 0.00 12.00 CAGAGGGACACTAGGAATCAAAA RIGHT PRIMER 1092 21 59.48 52.38 5.00 2.00 12.00 ccagcactctaagaacccaga SEQUENCE SIZE: 1272 INCLUDED REGION SIZE: 1272 PRODUCT SIZE: 500, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 0.00 TARGETS (start, len)*: 669,400 EXCLUDED REGIONS (start, len)*: 0,369 1272,0 0 cttcctgcccagaatcgagggacaaagatggcatccggccctaacttggaggcacggttt XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 60 tcccagcctccgtctttcagtaccgagatacagataatagggaggggggtttgagtggca XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 120 ggatgagagggctggagaaggatgaggatgtccagagatgcaggaggagacacccgcgag XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 180 cagtgcagggcagcggctctagggccctggctggtgtttgggggtggggggtccttcccg XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 240 cacagccctgcttgtctcaaccatgtgcgctcccttgcttccttcctcctcccgccccca XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 300 gTGAGTTCCATCAGCCGCATCCTGAGAAGTAAATTCGGGAAAGGTGAAGAGGAGGAGGCC XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 360 GACTTGGAGAGGAAGGAGGCAGAGGAAAGCGAGAAGAAGGCCAAACACAGCATCGACGGC XXXXXXXXX 420 ATCCTGAGCGAGCGAGGTAAGCGGTGGCGCCTTGGGCGGCGCACTTGCTGGGTGACTTGG 480 AGGGCATCGGCTAGCTGACATTGGTGATCTGACGGCAGCCAAGCCCAGCTCGGATCAAGG 540 TCCCTTCATGCGCGGTGTCTCTGCGCCTGAGTAACGACATGGAACTGAAAGACCAGAGGG >>>>>>> 600 ACACTAGGAATCAAAACAAACATTTCTATTCTGCTTAGTTTTTCTGTTTTGTAAATCTTT >>>>>>>>>>>>>>>> 660 CTTTCTTAACCACTTTCAGCCCCTGGGATTCTAGAACTGTGAATTGTGCTCTGTTGTAGG *************************************************** 720 GGGCAGGGGAAGCTCTCACTCTGTTGCCATTAAATGTATGAGACTGGGCATCTCTGAGCA ************************************************************ 780 ATTGTAGGGCCGGGGATAGAGGGTACTTGAATCTTCAGAAGTTGAAGTAGCTTTTATGCC ************************************************************ 840 CTCAGGAAAGGCCCTGGTCTCCGGAGTTTCCTCGCATTAAAGGAGAGAGAGAGAGAGTAC ************************************************************ 900 TCTTTTGGGCAACGGCCCTCCAAAATTGCCCCCACATTGGCTGCCTTATAAATATGTCTG ************************************************************ 960 TGTGTTGACTGGTttgatttgtttgaagttgattttcaaatgtgagggggtttaacctgt ************************************************************ 1020 gtgtgcctgggaattgaaaggaacccaagctctgggttacaaattgaagggatctgggtt ************************************************* <<<<<<<< 1080 cttagagtgctggcaccctctgtcttctaggggtacagatccccattccttttcggctgt <<<<<<<<<<<<< 1140 gcactgtcggcactaagaaaaaaaatctcccccatgggagacagaagtgcagcttgcttc 1200 cccttcacctgccgcaagccatcctcaaactttaagggtacaaacgcaaaaagaaagaaa 1260 gaaaggaaaaga 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 593 22 58.32 45.45 4.00 1.00 11.00 CAGAGGGACACTAGGAATCAAA RIGHT PRIMER 1092 21 59.48 52.38 5.00 2.00 12.00 ccagcactctaagaacccaga PRODUCT SIZE: 500, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 0.00 2 LEFT PRIMER 593 24 60.39 45.83 4.00 0.00 12.00 CAGAGGGACACTAGGAATCAAAAC RIGHT PRIMER 1092 21 59.48 52.38 5.00 2.00 12.00 ccagcactctaagaacccaga PRODUCT SIZE: 500, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 0.00 3 LEFT PRIMER 594 23 57.84 43.48 4.00 0.00 12.00 AGAGGGACACTAGGAATCAAAAC RIGHT PRIMER 1092 21 59.48 52.38 5.00 2.00 12.00 ccagcactctaagaacccaga PRODUCT SIZE: 499, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 0.00 4 LEFT PRIMER 601 25 58.26 32.00 4.00 2.00 12.00 CACTAGGAATCAAAACAAACATTTC RIGHT PRIMER 1092 21 59.48 52.38 5.00 2.00 12.00 ccagcactctaagaacccaga PRODUCT SIZE: 492, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 2.00 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 1822 0 0 369 685 0 0 0 1 155 90 0 62 460 Right 779 0 0 0 95 0 0 0 12 311 43 22 47 249 Pair Stats: considered 8352, unacceptable product size 8323, tm diff too large 24, ok 5 primer3 release 1.0