PRIMER PICKING RESULTS FOR NM_000438_4p1 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 241 20 60.45 55.00 4.00 1.00 12.00 acagccctgcttgtctcaac RIGHT PRIMER 722 20 61.08 55.00 2.00 0.00 12.00 CCCCCTACAACAGAGCACAA SEQUENCE SIZE: 1272 INCLUDED REGION SIZE: 1272 PRODUCT SIZE: 482, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 2.00 TARGETS (start, len)*: 269,400 EXCLUDED REGIONS (start, len)*: 0,0 969,303 0 cttcctgcccagaatcgagggacaaagatggcatccggccctaacttggaggcacggttt 60 tcccagcctccgtctttcagtaccgagatacagataatagggaggggggtttgagtggca 120 ggatgagagggctggagaaggatgaggatgtccagagatgcaggaggagacacccgcgag 180 cagtgcagggcagcggctctagggccctggctggtgtttgggggtggggggtccttcccg 240 cacagccctgcttgtctcaaccatgtgcgctcccttgcttccttcctcctcccgccccca >>>>>>>>>>>>>>>>>>>> ******************************* 300 gTGAGTTCCATCAGCCGCATCCTGAGAAGTAAATTCGGGAAAGGTGAAGAGGAGGAGGCC ************************************************************ 360 GACTTGGAGAGGAAGGAGGCAGAGGAAAGCGAGAAGAAGGCCAAACACAGCATCGACGGC ************************************************************ 420 ATCCTGAGCGAGCGAGGTAAGCGGTGGCGCCTTGGGCGGCGCACTTGCTGGGTGACTTGG ************************************************************ 480 AGGGCATCGGCTAGCTGACATTGGTGATCTGACGGCAGCCAAGCCCAGCTCGGATCAAGG ************************************************************ 540 TCCCTTCATGCGCGGTGTCTCTGCGCCTGAGTAACGACATGGAACTGAAAGACCAGAGGG ************************************************************ 600 ACACTAGGAATCAAAACAAACATTTCTATTCTGCTTAGTTTTTCTGTTTTGTAAATCTTT ************************************************************ 660 CTTTCTTAACCACTTTCAGCCCCTGGGATTCTAGAACTGTGAATTGTGCTCTGTTGTAGG ********* <<<<<<<<<<<<<<<<< 720 GGGCAGGGGAAGCTCTCACTCTGTTGCCATTAAATGTATGAGACTGGGCATCTCTGAGCA <<< 780 ATTGTAGGGCCGGGGATAGAGGGTACTTGAATCTTCAGAAGTTGAAGTAGCTTTTATGCC 840 CTCAGGAAAGGCCCTGGTCTCCGGAGTTTCCTCGCATTAAAGGAGAGAGAGAGAGAGTAC 900 TCTTTTGGGCAACGGCCCTCCAAAATTGCCCCCACATTGGCTGCCTTATAAATATGTCTG 960 TGTGTTGACTGGTttgatttgtttgaagttgattttcaaatgtgagggggtttaacctgt XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1020 gtgtgcctgggaattgaaaggaacccaagctctgggttacaaattgaagggatctgggtt XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1080 cttagagtgctggcaccctctgtcttctaggggtacagatccccattccttttcggctgt XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1140 gcactgtcggcactaagaaaaaaaatctcccccatgggagacagaagtgcagcttgcttc XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1200 cccttcacctgccgcaagccatcctcaaactttaagggtacaaacgcaaaaagaaagaaa XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 1260 gaaaggaaaaga XXXXXXXXXXXX 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 241 20 60.45 55.00 4.00 1.00 12.00 acagccctgcttgtctcaac RIGHT PRIMER 693 19 60.16 57.89 5.00 1.00 11.00 CTAGAATCCCAGGGGCTGA PRODUCT SIZE: 453, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00 2 LEFT PRIMER 241 20 60.45 55.00 4.00 1.00 12.00 acagccctgcttgtctcaac RIGHT PRIMER 722 19 59.69 57.89 2.00 0.00 12.00 CCCCCTACAACAGAGCACA PRODUCT SIZE: 482, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 1.00 3 LEFT PRIMER 246 21 61.70 52.38 5.00 3.00 11.00 cctgcttgtctcaaccatgtg RIGHT PRIMER 722 20 61.08 55.00 2.00 0.00 12.00 CCCCCTACAACAGAGCACAA PRODUCT SIZE: 477, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00 4 LEFT PRIMER 246 21 61.70 52.38 5.00 3.00 11.00 cctgcttgtctcaaccatgtg RIGHT PRIMER 693 19 60.16 57.89 5.00 1.00 11.00 CTAGAATCCCAGGGGCTGA PRODUCT SIZE: 448, PAIR ANY COMPL: 4.00, 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 1274 0 0 0 585 0 0 0 0 154 56 17 58 404 Right 1508 0 0 309 143 0 0 0 14 405 91 0 76 470 Pair Stats: considered 6415, unacceptable product size 6401, tm diff too large 2, high end compl 2, ok 10 primer3 release 1.0