1
PRIMER PICKING RESULTS FOR exon1
3
Using mispriming library not_for_production.lib
4
Using 0-based sequence positions
5
OLIGO start len tm gc% any 3' rep seq
6
LEFT PRIMER 43 18 55.22 55.56 6.00 1.00 9.00 TCACCCACGAGTGAAGAC
7
RIGHT PRIMER 279 18 56.69 61.11 3.00 1.00 8.00 CTCCTCAGCCTTGTCACC
9
INCLUDED REGION SIZE: 365
11
PRODUCT SIZE: 237, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00
12
EXCLUDED REGIONS (start, len)*: 100,150
14
0 AAGCCGAGGATGACTTCACTTTCCGACCCTGCAGAGCCGAGTTTCACCCACGAGTGAAGA
17
60 CTCCGCCAGCCTTGCCCCTCGGGCCTCTCCCTCAACTCACCATGATGGCGGCAGGCAGCA
18
> XXXXXXXXXXXXXXXXXXXX
20
120 GTTCCCGACCGGCTCGAGGAGGAGCAGAGGCTGTGCTTGGCGCACCACTTCTGGGGCTGC
21
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
23
180 TGTGAGGTCCGNCTGGAACCCGCTGCGCGGCTTCGAGTGGTCAAAGGAGCCAAAGATGAA
24
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
26
240 GAGAAAAGGAAAACCAAGAGCGGGTGACAAGGCTGAGGAGCCCCGAAAGGCGGACCGTCA
27
XXXXXXXXXX <<<<<<<<<<<<<<<<<<
29
300 GGCTGAGGAGCGCAGGCGGACTGAGGCGTGGTCCGCGGGGCTCAGGGAGGTGGCTCCTGC
35
KEYS (in order of precedence):
36
XXXXXX excluded region
41
start len tm gc% any 3' rep seq
43
1 LEFT PRIMER 40 18 55.24 50.00 8.00 8.00 8.00 GTTTCACCCACGAGTGAA
44
RIGHT PRIMER 279 18 56.69 61.11 3.00 1.00 8.00 CTCCTCAGCCTTGTCACC
45
PRODUCT SIZE: 240, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00
47
2 LEFT PRIMER 38 18 54.75 55.56 4.00 4.00 8.00 GAGTTTCACCCACGAGTG
48
RIGHT PRIMER 279 18 56.69 61.11 3.00 1.00 8.00 CTCCTCAGCCTTGTCACC
49
PRODUCT SIZE: 242, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 2.00
51
3 LEFT PRIMER 39 18 54.75 50.00 6.00 6.00 9.00 AGTTTCACCCACGAGTGA
52
RIGHT PRIMER 279 18 56.69 61.11 3.00 1.00 8.00 CTCCTCAGCCTTGTCACC
53
PRODUCT SIZE: 241, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 3.00
55
4 LEFT PRIMER 43 18 55.22 55.56 6.00 1.00 9.00 TCACCCACGAGTGAAGAC
56
RIGHT PRIMER 280 18 56.87 61.11 3.00 3.00 8.00 GCTCCTCAGCCTTGTCAC
57
PRODUCT SIZE: 238, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00
60
con too in in no tm tm high high high high
61
sid many tar excl bad GC too too any 3' lib poly end
62
ered Ns get reg GC% clamp low high compl compl sim X stab ok
63
Left 877 1 0 91 7 0 2 399 0 0 0 0 0 377
64
Right 1012 19 0 58 25 0 0 702 0 0 0 0 0 208
66
considered 23, unacceptable product size 17, ok 6
70
PRIMER PICKING RESULTS FOR exon2
72
Using mispriming library not_for_production.lib
73
Using 0-based sequence positions
74
OLIGO start len tm gc% any 3' rep seq
75
LEFT PRIMER 39 20 54.89 35.00 4.00 4.00 9.00 CCCAAATCCCATTATTCATA
76
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
78
INCLUDED REGION SIZE: 342
80
PRODUCT SIZE: 229, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 0.00
81
EXCLUDED REGIONS (start, len)*: 100,145
83
0 CTCCATGAAGTACAAAAAAACCTTAAGTTTGTAACAGGGCCCAAATCCCATTATTCATAA
86
60 TGCATTTCAAGGTAAAAATGAGGTATGAATACAATACCCTAACATCAATTCCTCCAACAA
89
120 AAACAGTGTTTGGCATGATTTTGCCTTCTGGTAAAATATAGCCTTGGCTGGTTGCAGCTG
90
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
92
180 ATGAGGACTGGGTGCTGGCCTCTCTGGAGATGGTTGAGTTTGGAGTTTCAGGATTTGCAG
93
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
95
240 TAGACTGTAATTTGGAAAGTAGACATCATAATTAGATACACAGGAAAAACCTATACATAA
96
XXXXX<<<<<<<<<<<<<<<<<<<<<<<
98
300 TGTGAAATATAATTTTTGTATTTTAAGTATAAAATATTTTAT
101
KEYS (in order of precedence):
102
XXXXXX excluded region
107
start len tm gc% any 3' rep seq
109
1 LEFT PRIMER 39 20 54.89 35.00 4.00 4.00 9.00 CCCAAATCCCATTATTCATA
110
RIGHT PRIMER 268 24 54.78 29.17 6.00 6.00 9.00 ATGATGTCTACTTTCCAAATTACA
111
PRODUCT SIZE: 230, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 0.00
113
2 LEFT PRIMER 20 20 54.19 45.00 6.00 2.00 8.00 CCTTAAGTTTGTAACAGGGC
114
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
115
PRODUCT SIZE: 248, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
117
3 LEFT PRIMER 21 20 54.19 45.00 6.00 4.00 8.00 CTTAAGTTTGTAACAGGGCC
118
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
119
PRODUCT SIZE: 247, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
121
4 LEFT PRIMER 19 21 55.19 42.86 6.00 2.00 8.00 ACCTTAAGTTTGTAACAGGGC
122
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
123
PRODUCT SIZE: 249, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
126
con too in in no tm tm high high high high
127
sid many tar excl bad GC too too any 3' lib poly end
128
ered Ns get reg GC% clamp low high compl compl sim X stab ok
129
Left 728 0 0 69 2 0 126 0 0 0 1 23 0 507
130
Right 827 0 0 72 314 0 236 0 0 0 0 0 0 205
132
considered 14, unacceptable product size 8, ok 6
136
PRIMER PICKING RESULTS FOR exon2
138
Using mispriming library not_for_production.lib
139
No internal oligo mishyb library specified
140
Using 0-based sequence positions
141
OLIGO start len tm gc% any 3' rep seq
142
LEFT PRIMER 39 20 54.89 35.00 4.00 4.00 9.00 CCCAAATCCCATTATTCATA
143
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
144
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
146
INCLUDED REGION SIZE: 342
148
PRODUCT SIZE: 229, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 0.00
149
EXCLUDED REGIONS (start, len)*: 100,145
151
0 CTCCATGAAGTACAAAAAAACCTTAAGTTTGTAACAGGGCCCAAATCCCATTATTCATAA
154
60 TGCATTTCAAGGTAAAAATGAGGTATGAATACAATACCCTAACATCAATTCCTCCAACAA
157
120 AAACAGTGTTTGGCATGATTTTGCCTTCTGGTAAAATATAGCCTTGGCTGGTTGCAGCTG
158
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
160
180 ATGAGGACTGGGTGCTGGCCTCTCTGGAGATGGTTGAGTTTGGAGTTTCAGGATTTGCAG
161
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
163
240 TAGACTGTAATTTGGAAAGTAGACATCATAATTAGATACACAGGAAAAACCTATACATAA
164
XXXXX<<<<<<<<<<<<<<<<<<<<<<<
166
300 TGTGAAATATAATTTTTGTATTTTAAGTATAAAATATTTTAT
169
KEYS (in order of precedence):
170
XXXXXX excluded region
173
^^^^^^ internal oligo
176
start len tm gc% any 3' rep seq
178
1 LEFT PRIMER 39 20 54.89 35.00 4.00 4.00 9.00 CCCAAATCCCATTATTCATA
179
RIGHT PRIMER 268 24 54.78 29.17 6.00 6.00 9.00 ATGATGTCTACTTTCCAAATTACA
180
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
181
PRODUCT SIZE: 230, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 0.00
183
2 LEFT PRIMER 20 20 54.19 45.00 6.00 2.00 8.00 CCTTAAGTTTGTAACAGGGC
184
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
185
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
186
PRODUCT SIZE: 248, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
188
3 LEFT PRIMER 21 20 54.19 45.00 6.00 4.00 8.00 CTTAAGTTTGTAACAGGGCC
189
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
190
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
191
PRODUCT SIZE: 247, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
193
4 LEFT PRIMER 19 21 55.19 42.86 6.00 2.00 8.00 ACCTTAAGTTTGTAACAGGGC
194
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
195
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
196
PRODUCT SIZE: 249, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
199
con too in in no tm tm high high high high
200
sid many tar excl bad GC too too any 3' lib poly end
201
ered Ns get reg GC% clamp low high compl compl sim X stab ok
202
Left 728 0 0 69 2 0 126 0 0 0 1 23 0 507
203
Right 827 0 0 72 314 0 236 0 0 0 0 0 0 205
204
Intl 3079 0 0 0 316 0 517 178 0 0 0 23 0 2045
206
considered 14, unacceptable product size 8, ok 6
210
PRIMER PICKING RESULTS FOR exon1
212
Using mispriming library not_for_production.lib
213
No internal oligo mishyb library specified
214
Using 0-based sequence positions
215
OLIGO start len tm gc% any 3' rep seq
216
LEFT PRIMER 40 18 55.24 50.00 8.00 8.00 8.00 GTTTCACCCACGAGTGAA
217
RIGHT PRIMER 279 18 56.69 61.11 3.00 1.00 8.00 CTCCTCAGCCTTGTCACC
218
INTERNAL OLIGO 210 20 59.99 55.00 4.00 2.00 CTTCGAGTGGTCAAAGGAGC
220
INCLUDED REGION SIZE: 365
222
PRODUCT SIZE: 240, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00
223
EXCLUDED REGIONS (start, len)*: 100,150
225
0 AAGCCGAGGATGACTTCACTTTCCGACCCTGCAGAGCCGAGTTTCACCCACGAGTGAAGA
228
60 CTCCGCCAGCCTTGCCCCTCGGGCCTCTCCCTCAACTCACCATGATGGCGGCAGGCAGCA
231
120 GTTCCCGACCGGCTCGAGGAGGAGCAGAGGCTGTGCTTGGCGCACCACTTCTGGGGCTGC
232
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
234
180 TGTGAGGTCCGNCTGGAACCCGCTGCGCGGCTTCGAGTGGTCAAAGGAGCCAAAGATGAA
235
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
237
240 GAGAAAAGGAAAACCAAGAGCGGGTGACAAGGCTGAGGAGCCCCGAAAGGCGGACCGTCA
238
XXXXXXXXXX <<<<<<<<<<<<<<<<<<
240
300 GGCTGAGGAGCGCAGGCGGACTGAGGCGTGGTCCGCGGGGCTCAGGGAGGTGGCTCCTGC
246
KEYS (in order of precedence):
247
XXXXXX excluded region
250
^^^^^^ internal oligo
253
start len tm gc% any 3' rep seq
255
1 LEFT PRIMER 38 18 54.75 55.56 4.00 4.00 8.00 GAGTTTCACCCACGAGTG
256
RIGHT PRIMER 279 18 56.69 61.11 3.00 1.00 8.00 CTCCTCAGCCTTGTCACC
257
INTERNAL OLIGO 210 20 59.99 55.00 4.00 2.00 CTTCGAGTGGTCAAAGGAGC
258
PRODUCT SIZE: 242, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 2.00
260
2 LEFT PRIMER 43 18 55.22 55.56 6.00 1.00 9.00 TCACCCACGAGTGAAGAC
261
RIGHT PRIMER 280 18 56.87 61.11 3.00 3.00 8.00 GCTCCTCAGCCTTGTCAC
262
INTERNAL OLIGO 210 20 59.99 55.00 4.00 2.00 CTTCGAGTGGTCAAAGGAGC
263
PRODUCT SIZE: 238, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 2.00
265
3 LEFT PRIMER 40 18 55.24 50.00 8.00 8.00 8.00 GTTTCACCCACGAGTGAA
266
RIGHT PRIMER 280 18 56.87 61.11 3.00 3.00 8.00 GCTCCTCAGCCTTGTCAC
267
INTERNAL OLIGO 210 20 59.99 55.00 4.00 2.00 CTTCGAGTGGTCAAAGGAGC
268
PRODUCT SIZE: 241, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 3.00
270
4 LEFT PRIMER 38 18 54.75 55.56 4.00 4.00 8.00 GAGTTTCACCCACGAGTG
271
RIGHT PRIMER 280 18 56.87 61.11 3.00 3.00 8.00 GCTCCTCAGCCTTGTCAC
272
INTERNAL OLIGO 210 20 59.99 55.00 4.00 2.00 CTTCGAGTGGTCAAAGGAGC
273
PRODUCT SIZE: 243, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 3.00
276
con too in in no tm tm high high high high
277
sid many tar excl bad GC too too any 3' lib poly end
278
ered Ns get reg GC% clamp low high compl compl sim X stab ok
279
Left 877 1 0 91 7 0 2 399 0 0 0 0 0 377
280
Right 1012 19 0 58 25 0 0 702 0 0 0 0 0 208
281
Intl 3237 27 0 0 32 0 23 1880 0 0 0 0 0 1275
283
considered 29, unacceptable product size 18, high mispriming library similarity 2, ok 9
287
PRIMER PICKING RESULTS FOR exon2
289
Using mispriming library not_for_production.lib
290
No internal oligo mishyb library specified
291
Using 0-based sequence positions
292
OLIGO start len tm gc% any 3' rep seq
293
LEFT PRIMER 23 19 55.24 47.37 6.00 6.00 8.00 TAAGTTTGTAACAGGGCCC
294
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
295
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
297
INCLUDED REGION SIZE: 342
299
PRODUCT SIZE: 245, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
300
EXCLUDED REGIONS (start, len)*: 100,145
302
0 CTCCATGAAGTACAAAAAAACCTTAAGTTTGTAACAGGGCCCAAATCCCATTATTCATAA
305
60 TGCATTTCAAGGTAAAAATGAGGTATGAATACAATACCCTAACATCAATTCCTCCAACAA
308
120 AAACAGTGTTTGGCATGATTTTGCCTTCTGGTAAAATATAGCCTTGGCTGGTTGCAGCTG
309
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
311
180 ATGAGGACTGGGTGCTGGCCTCTCTGGAGATGGTTGAGTTTGGAGTTTCAGGATTTGCAG
312
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
314
240 TAGACTGTAATTTGGAAAGTAGACATCATAATTAGATACACAGGAAAAACCTATACATAA
315
XXXXX<<<<<<<<<<<<<<<<<<<<<<<
317
300 TGTGAAATATAATTTTTGTATTTTAAGTATAAAATATTTTAT
320
KEYS (in order of precedence):
321
XXXXXX excluded region
324
^^^^^^ internal oligo
327
start len tm gc% any 3' rep seq
329
1 LEFT PRIMER 23 19 55.24 47.37 6.00 6.00 8.00 TAAGTTTGTAACAGGGCCC
330
RIGHT PRIMER 268 24 54.78 29.17 6.00 6.00 9.00 ATGATGTCTACTTTCCAAATTACA
331
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
332
PRODUCT SIZE: 246, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 3.00
334
2 LEFT PRIMER 22 20 56.79 45.00 6.00 6.00 8.00 TTAAGTTTGTAACAGGGCCC
335
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
336
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
337
PRODUCT SIZE: 246, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 2.00
339
3 LEFT PRIMER 24 18 55.03 50.00 6.00 6.00 8.00 AAGTTTGTAACAGGGCCC
340
RIGHT PRIMER 267 23 54.24 30.43 6.00 6.00 9.00 TGATGTCTACTTTCCAAATTACA
341
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
342
PRODUCT SIZE: 244, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 2.00
344
4 LEFT PRIMER 22 20 56.79 45.00 6.00 6.00 8.00 TTAAGTTTGTAACAGGGCCC
345
RIGHT PRIMER 268 24 54.78 29.17 6.00 6.00 9.00 ATGATGTCTACTTTCCAAATTACA
346
INTERNAL OLIGO 127 20 59.94 40.00 6.00 2.00 GTTTGGCATGATTTTGCCTT
347
PRODUCT SIZE: 247, PAIR ANY COMPL: 6.00, PAIR 3' COMPL: 2.00
350
con too in in no tm tm high high high high
351
sid many tar excl bad GC too too any 3' lib poly end
352
ered Ns get reg GC% clamp low high compl compl sim X stab ok
353
Left 728 0 0 69 2 0 126 0 0 0 17 23 0 491
354
Right 827 0 0 72 314 0 236 0 0 0 10 0 0 195
355
Intl 3079 0 0 0 316 0 517 178 0 0 0 23 0 2045
357
considered 116, unacceptable product size 66, tm diff too large 5, high mispriming library similarity 38, ok 7
361
PRIMER PICKING RESULTS FOR exon2
363
Using mispriming library not_for_production.lib
364
No internal oligo mishyb library specified
365
Using 0-based sequence positions
369
INCLUDED REGION SIZE: 342
371
EXCLUDED REGIONS (start, len)*: 100,145
373
0 CTCCATGAAGTACAAAAAAACCTTAAGTTTGTAACAGGGCCCAAATCCCATTATTCATAA
376
60 TGCATTTCAAGGTAAAAATGAGGTATGAATACAATACCCTAACATCAATTCCTCCAACAA
379
120 AAACAGTGTTTGGCATGATTTTGCCTTCTGGTAAAATATAGCCTTGGCTGGTTGCAGCTG
380
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
382
180 ATGAGGACTGGGTGCTGGCCTCTCTGGAGATGGTTGAGTTTGGAGTTTCAGGATTTGCAG
383
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
385
240 TAGACTGTAATTTGGAAAGTAGACATCATAATTAGATACACAGGAAAAACCTATACATAA
388
300 TGTGAAATATAATTTTTGTATTTTAAGTATAAAATATTTTAT
391
KEYS (in order of precedence):
392
XXXXXX excluded region
396
con too in in no tm tm high high high high
397
sid many tar excl bad GC too too any 3' lib poly end
398
ered Ns get reg GC% clamp low high compl compl sim X stab ok
399
Left 728 0 0 69 2 0 126 0 0 0 124 23 0 384
400
Right 827 0 0 72 314 0 236 0 0 0 176 0 0 29
401
Intl 3079 0 0 0 316 0 517 178 0 0 0 23 0 2045
403
considered 12459, unacceptable product size 6872, tm diff too large 4075, high mispriming library similarity 1512, ok 0
added
removed
test/primer_mispriming_formatted_output
