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comparison test-data/last_train_E.txt @ 4:8705e0d74a0f draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/last commit 6b601baaf89634bc8d110ea06e3e64c7a585f3ba"
author iuc
date Wed, 24 Mar 2021 22:36:50 +0000
parents 3de2195f32c0
children
comparison
equal deleted inserted replaced
3:3de2195f32c0 4:8705e0d74a0f
1 # lastal version: 1021 1 # lastal version: 1205
2 # maximum percent identity: 100 2 # maximum percent identity: 100
3 # scale of score parameters: 4.5512 3 # scale of score parameters: 4.5512
4 # scale used while training: 91.024 4 # scale used while training: 91.024
5 5
6 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -r5 -q5 -a15 -b3 -A15 -B3 ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 6 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -r5 -q5 -a15 -b3 -A15 -B3 /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
7 7
8 # aligned letter pairs: 14901 8 # aligned letter pairs: 14901
9 # deletes: 694 9 # deletes: 694
10 # inserts: 834 10 # inserts: 834
11 # delOpens: 350 11 # delOpens: 350
45 # A 76 -90 -59 -105 45 # A 76 -90 -59 -105
46 # C -87 73 -129 -54 46 # C -87 73 -129 -54
47 # G -88 -164 145 -167 47 # G -88 -164 145 -167
48 # T -112 -66 -127 90 48 # T -112 -66 -127 90
49 49
50 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4322 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 50 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4322 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
51 51
52 # aligned letter pairs: 14771 52 # aligned letter pairs: 14771
53 # deletes: 379.3 53 # deletes: 379.3
54 # inserts: 567.1 54 # inserts: 567.1
55 # delOpens: 185.2 55 # delOpens: 185.2
61 # delOpenProb: 0.01218 61 # delOpenProb: 0.01218
62 # insOpenProb: 0.0161851 62 # insOpenProb: 0.0161851
63 # delExtendProb: 0.511732 63 # delExtendProb: 0.511732
64 # insExtendProb: 0.566038 64 # insExtendProb: 0.566038
65 65
66 # substitution percent identity: 70.0105 66 # substitution percent identity: 70.0152
67 67
68 # count matrix (query letters = columns, reference letters = rows): 68 # count matrix (query letters = columns, reference letters = rows):
69 # A C G T 69 # A C G T
70 # A 3158 583.4 429.9 391.6 70 # A 3158 582.4 429.9 391.6
71 # C 589 3065 156.8 774 71 # C 589 3065 156.8 774
72 # G 252.2 88.64 1571 68.46 72 # G 252.2 88.64 1571 68.46
73 # T 342.6 630.1 131.09 2566 73 # T 342.6 630.1 131.09 2566
74 74
75 # probability matrix (query letters = columns, reference letters = rows): 75 # probability matrix (query letters = columns, reference letters = rows):
76 # A C G T 76 # A C G T
77 # A 0.21341 0.0394248 0.0290516 0.0264634 77 # A 0.213425 0.0393599 0.0290536 0.0264652
78 # C 0.0398032 0.207126 0.0105962 0.0523051 78 # C 0.0398059 0.20714 0.0105969 0.0523086
79 # G 0.0170431 0.00599008 0.106165 0.00462637 79 # G 0.0170442 0.00599049 0.106172 0.00462668
80 # T 0.0231521 0.0425807 0.00885876 0.173404 80 # T 0.0231537 0.0425836 0.00885935 0.173416
81 81
82 # delExistCost: 406 82 # delExistCost: 406
83 # insExistCost: 400 83 # insExistCost: 400
84 # delExtendCost: 60 84 # delExtendCost: 60
85 # insExtendCost: 51 85 # insExtendCost: 51
86 86
87 # score matrix (query letters = columns, reference letters = rows): 87 # score matrix (query letters = columns, reference letters = rows):
88 # A C G T 88 # A C G T
89 # A 75 -79 -48 -102 89 # A 76 -79 -48 -102
90 # C -78 72 -140 -41 90 # C -78 72 -140 -41
91 # G -79 -174 146 -185 91 # G -79 -174 146 -185
92 # T -107 -52 -136 89 92 # T -107 -52 -136 89
93 93
94 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.8564 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 94 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.6863 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
95 95
96 # aligned letter pairs: 14881 96 # aligned letter pairs: 14881
97 # deletes: 258.8 97 # deletes: 264.3
98 # inserts: 446.1 98 # inserts: 451.9
99 # delOpens: 112.91 99 # delOpens: 116.18
100 # insOpens: 168 100 # insOpens: 171.3
101 # alignments: 2 101 # alignments: 2
102 # mean delete size: 2.29209 102 # mean delete size: 2.27492
103 # mean insert size: 2.65536 103 # mean insert size: 2.63806
104 # matchProb: 0.981278 104 # matchProb: 0.980854
105 # delOpenProb: 0.00744548 105 # delOpenProb: 0.00765779
106 # insOpenProb: 0.0110782 106 # insOpenProb: 0.0112909
107 # delExtendProb: 0.563717 107 # delExtendProb: 0.560424
108 # insExtendProb: 0.623403 108 # insExtendProb: 0.620934
109 109
110 # substitution percent identity: 68.9366 110 # substitution percent identity: 68.9602
111 111
112 # count matrix (query letters = columns, reference letters = rows): 112 # count matrix (query letters = columns, reference letters = rows):
113 # A C G T 113 # A C G T
114 # A 3126 618.3 445 406.6 114 # A 3126 617.2 445 406.6
115 # C 622.8 3041 159.4 805.4 115 # C 621.9 3041 159.4 804.4
116 # G 265.2 91.16 1560 68.22 116 # G 264.2 91.07 1560 68.32
117 # T 357.3 660 133.33 2554 117 # T 357.3 658.9 133.32 2554
118 118
119 # probability matrix (query letters = columns, reference letters = rows): 119 # probability matrix (query letters = columns, reference letters = rows):
120 # A C G T 120 # A C G T
121 # A 0.209606 0.0414585 0.0298383 0.0272635 121 # A 0.209677 0.0413989 0.0298485 0.0272728
122 # C 0.0417602 0.203906 0.0106882 0.054004 122 # C 0.0417142 0.203976 0.0106918 0.0539554
123 # G 0.0177823 0.0061125 0.104602 0.00457431 123 # G 0.0177213 0.00610855 0.104638 0.00458259
124 # T 0.0239578 0.0442546 0.0089401 0.171252 124 # T 0.023966 0.0441959 0.00894248 0.17131
125 125
126 # delExistCost: 470 126 # delExistCost: 466
127 # insExistCost: 457 127 # insExistCost: 453
128 # delExtendCost: 52 128 # delExtendCost: 52
129 # insExtendCost: 42 129 # insExtendCost: 43
130 130
131 # score matrix (query letters = columns, reference letters = rows): 131 # score matrix (query letters = columns, reference letters = rows):
132 # A C G T 132 # A C G T
133 # A 75 -73 -44 -99 133 # A 75 -74 -44 -99
134 # C -73 71 -138 -37 134 # C -73 71 -138 -37
135 # G -73 -171 147 -185 135 # G -74 -171 147 -185
136 # T -103 -48 -134 88 136 # T -103 -48 -134 88
137 137
138 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1831 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 138 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1379 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
139 139
140 # aligned letter pairs: 14981 140 # aligned letter pairs: 14981
141 # deletes: 214.8 141 # deletes: 217
142 # inserts: 402.9 142 # inserts: 405.1
143 # delOpens: 82.32 143 # delOpens: 83.75
144 # insOpens: 131.98 144 # insOpens: 134.12
145 # alignments: 2 145 # alignments: 2
146 # mean delete size: 2.60933 146 # mean delete size: 2.59104
147 # mean insert size: 3.05274 147 # mean insert size: 3.02043
148 # matchProb: 0.985702 148 # matchProb: 0.985471
149 # delOpenProb: 0.0054164 149 # delOpenProb: 0.00550919
150 # insOpenProb: 0.00868387 150 # insOpenProb: 0.0088226
151 # delExtendProb: 0.61676 151 # delExtendProb: 0.614055
152 # insExtendProb: 0.672425 152 # insExtendProb: 0.668921
153 153
154 # substitution percent identity: 68.4035 154 # substitution percent identity: 68.4369
155 155
156 # count matrix (query letters = columns, reference letters = rows): 156 # count matrix (query letters = columns, reference letters = rows):
157 # A C G T 157 # A C G T
158 # A 3114 635.9 450 416.3 158 # A 3114 634.8 449.1 416.3
159 # C 640.1 3019 164.9 816.3 159 # C 639 3019 163.9 815.3
160 # G 270.6 93.43 1560 69.38 160 # G 269.6 93.35 1560 69.28
161 # T 365.7 670 135.53 2543 161 # T 364.7 670 135.51 2543
162 162
163 # probability matrix (query letters = columns, reference letters = rows): 163 # probability matrix (query letters = columns, reference letters = rows):
164 # A C G T 164 # A C G T
165 # A 0.208097 0.0424949 0.0300719 0.0278198 165 # A 0.208199 0.0424421 0.0300264 0.0278334
166 # C 0.0427756 0.201749 0.0110197 0.0545504 166 # C 0.0427229 0.201847 0.0109582 0.0545102
167 # G 0.0180832 0.00624359 0.104249 0.00463642 167 # G 0.0180252 0.00624129 0.1043 0.00463199
168 # T 0.0244384 0.0447737 0.00905699 0.16994 168 # T 0.0243835 0.0447956 0.00906007 0.170023
169 169
170 # delExistCost: 518 170 # delExistCost: 516
171 # insExistCost: 498 171 # insExistCost: 495
172 # delExtendCost: 44 172 # delExtendCost: 44
173 # insExtendCost: 36 173 # insExtendCost: 36
174 174
175 # score matrix (query letters = columns, reference letters = rows): 175 # score matrix (query letters = columns, reference letters = rows):
176 # A C G T 176 # A C G T
177 # A 74 -71 -43 -97 177 # A 75 -71 -43 -97
178 # C -70 71 -135 -36 178 # C -70 71 -135 -36
179 # G -71 -169 146 -183 179 # G -72 -169 147 -183
180 # T -101 -46 -133 88 180 # T -101 -46 -133 88
181 181
182 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.7211 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 182 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.7798 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
183 183
184 # aligned letter pairs: 14981 184 # aligned letter pairs: 14981
185 # deletes: 197.5 185 # deletes: 204.2
186 # inserts: 386.4 186 # inserts: 393.3
187 # delOpens: 68.51 187 # delOpens: 71.01
188 # insOpens: 115.71 188 # insOpens: 119.07
189 # alignments: 2 189 # alignments: 2
190 # mean delete size: 2.88279 190 # mean delete size: 2.87565
191 # mean insert size: 3.33938 191 # mean insert size: 3.3031
192 # matchProb: 0.987657 192 # matchProb: 0.987276
193 # delOpenProb: 0.00451668 193 # delOpenProb: 0.00467969
194 # insOpenProb: 0.00762845 194 # insOpenProb: 0.00784693
195 # delExtendProb: 0.653114 195 # delExtendProb: 0.652253
196 # insExtendProb: 0.700543 196 # insExtendProb: 0.697254
197 197
198 # substitution percent identity: 68.1501 198 # substitution percent identity: 68.1926
199 199
200 # count matrix (query letters = columns, reference letters = rows): 200 # count matrix (query letters = columns, reference letters = rows):
201 # A C G T 201 # A C G T
202 # A 3103 643.6 451.1 422.5 202 # A 3104 642.4 451.1 421.4
203 # C 649.8 3008 167 819.5 203 # C 647.7 3009 167 819.4
204 # G 272.7 94.59 1560 70.43 204 # G 271.7 94.39 1560 70.33
205 # T 369.8 675.4 136.61 2542 205 # T 368.8 674.3 136.58 2543
206 206
207 # probability matrix (query letters = columns, reference letters = rows): 207 # probability matrix (query letters = columns, reference letters = rows):
208 # A C G T 208 # A C G T
209 # A 0.20706 0.0429467 0.0301014 0.0281929 209 # A 0.207194 0.0428807 0.0301113 0.0281288
210 # C 0.0433604 0.20072 0.0111437 0.0546843 210 # C 0.0432345 0.200853 0.0111474 0.0546956
211 # G 0.0181969 0.00631188 0.104097 0.00469971 211 # G 0.0181362 0.00630061 0.104131 0.00469458
212 # T 0.0246763 0.0450686 0.00911582 0.169625 212 # T 0.0246177 0.04501 0.00911682 0.169747
213 213
214 # delExistCost: 549 214 # delExistCost: 545
215 # insExistCost: 522 215 # insExistCost: 517
216 # delExtendCost: 39 216 # delExtendCost: 39
217 # insExtendCost: 32 217 # insExtendCost: 33
218 218
219 # score matrix (query letters = columns, reference letters = rows): 219 # score matrix (query letters = columns, reference letters = rows):
220 # A C G T 220 # A C G T
221 # A 74 -69 -43 -95 221 # A 74 -70 -43 -96
222 # C -68 70 -134 -35 222 # C -69 70 -134 -35
223 # G -71 -168 146 -182 223 # G -71 -168 146 -182
224 # T -100 -45 -132 88 224 # T -100 -46 -132 88
225 225
226 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.7441 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 226 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.3541 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
227 227
228 # aligned letter pairs: 14981 228 # aligned letter pairs: 14981
229 # deletes: 192.1 229 # deletes: 194.4
230 # inserts: 380.9 230 # inserts: 382.1
231 # delOpens: 62.34 231 # delOpens: 63.11
232 # insOpens: 108.21 232 # insOpens: 109.31
233 # alignments: 2 233 # alignments: 2
234 # mean delete size: 3.08149 234 # mean delete size: 3.08034
235 # mean insert size: 3.52001 235 # mean insert size: 3.49556
236 # matchProb: 0.988548 236 # matchProb: 0.988426
237 # delOpenProb: 0.00411362 237 # delOpenProb: 0.00416391
238 # insOpenProb: 0.00714043 238 # insOpenProb: 0.00721213
239 # delExtendProb: 0.675482 239 # delExtendProb: 0.67536
240 # insExtendProb: 0.71591 240 # insExtendProb: 0.713923
241 241
242 # substitution percent identity: 67.9883 242 # substitution percent identity: 68.0193
243 243
244 # count matrix (query letters = columns, reference letters = rows): 244 # count matrix (query letters = columns, reference letters = rows):
245 # A C G T 245 # A C G T
246 # A 3093 648 451.1 425.7 246 # A 3093 646.9 451.1 424.6
247 # C 654.2 3008 169 821.5 247 # C 652.9 3008 168 821.5
248 # G 272.8 95.26 1550 71.05 248 # G 272.7 95.16 1550 70.95
249 # T 371.8 677.5 136.66 2532 249 # T 370.8 676.5 136.64 2532
250 250
251 # probability matrix (query letters = columns, reference letters = rows): 251 # probability matrix (query letters = columns, reference letters = rows):
252 # A C G T 252 # A C G T
253 # A 0.206509 0.0432647 0.0301184 0.0284225 253 # A 0.206603 0.0432109 0.0301321 0.028362
254 # C 0.0436786 0.200834 0.0112835 0.0548487 254 # C 0.0436117 0.200925 0.0112219 0.0548737
255 # G 0.0182139 0.00636018 0.103488 0.00474376 255 # G 0.0182155 0.00635639 0.103535 0.00473924
256 # T 0.0248238 0.0452343 0.00912431 0.169053 256 # T 0.0247683 0.0451881 0.00912713 0.16913
257 257
258 # delExistCost: 566 258 # delExistCost: 565
259 # insExistCost: 534 259 # insExistCost: 533
260 # delExtendCost: 36 260 # delExtendCost: 36
261 # insExtendCost: 30 261 # insExtendCost: 30
262
263 # score matrix (query letters = columns, reference letters = rows):
264 # A C G T
265 # A 74 -69 -42 -95
266 # C -68 70 -133 -35
267 # G -70 -167 147 -181
268 # T -99 -45 -131 88
269
270 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1953 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
271
272 # aligned letter pairs: 14981
273 # deletes: 195.6
274 # inserts: 384.5
275 # delOpens: 60.75
276 # insOpens: 106.8
277 # alignments: 2
278 # mean delete size: 3.21975
279 # mean insert size: 3.60019
280 # matchProb: 0.988744
281 # delOpenProb: 0.00400949
282 # insOpenProb: 0.00704878
283 # delExtendProb: 0.689417
284 # insExtendProb: 0.722237
285
286 # substitution percent identity: 67.9748
287
288 # count matrix (query letters = columns, reference letters = rows):
289 # A C G T
290 # A 3093 648.9 451.2 425.6
291 # C 655.1 3008 169 821.4
292 # G 272.8 95.36 1550 71.16
293 # T 372.8 677.6 136.64 2532
294
295 # probability matrix (query letters = columns, reference letters = rows):
296 # A C G T
297 # A 0.206468 0.0433161 0.030119 0.0284102
298 # C 0.04373 0.200794 0.0112813 0.0548311
299 # G 0.0182103 0.00636558 0.103467 0.00475016
300 # T 0.0248856 0.045232 0.00912115 0.169019
301
302 # delExistCost: 575
303 # insExistCost: 539
304 # delExtendCost: 34
305 # insExtendCost: 29
262 306
263 # score matrix (query letters = columns, reference letters = rows): 307 # score matrix (query letters = columns, reference letters = rows):
264 # A C G T 308 # A C G T
265 # A 74 -69 -42 -94 309 # A 74 -69 -42 -94
266 # C -68 70 -133 -35 310 # C -68 70 -133 -35
267 # G -70 -167 147 -181 311 # G -70 -167 147 -181
268 # T -99 -45 -131 88 312 # T -99 -45 -131 88
269 313
270 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2473 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 314 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1816 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
271
272 # aligned letter pairs: 14981
273 # deletes: 194.5
274 # inserts: 383.3
275 # delOpens: 60.42
276 # insOpens: 106.36
277 # alignments: 2
278 # mean delete size: 3.21913
279 # mean insert size: 3.6038
280 # matchProb: 0.988794
281 # delOpenProb: 0.00398791
282 # insOpenProb: 0.0070201
283 # delExtendProb: 0.689357
284 # insExtendProb: 0.722515
285
286 # substitution percent identity: 67.9593
287
288 # count matrix (query letters = columns, reference letters = rows):
289 # A C G T
290 # A 3093 648.9 451.2 426.7
291 # C 655.2 3008 169 821.4
292 # G 273.8 95.46 1550 71.26
293 # T 372.8 678.6 136.64 2532
294
295 # probability matrix (query letters = columns, reference letters = rows):
296 # A C G T
297 # A 0.206421 0.0433063 0.0301122 0.0284771
298 # C 0.0437268 0.200748 0.0112787 0.0548186
299 # G 0.0182729 0.00637081 0.103444 0.00475575
300 # T 0.0248799 0.0452884 0.00911908 0.168981
301
302 # delExistCost: 575
303 # insExistCost: 539
304 # delExtendCost: 34
305 # insExtendCost: 29
306
307 # score matrix (query letters = columns, reference letters = rows):
308 # A C G T
309 # A 74 -69 -42 -94
310 # C -68 70 -132 -35
311 # G -70 -167 147 -180
312 # T -99 -45 -131 88
313
314 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2311 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB
315 315
316 # aligned letter pairs: 14981 316 # aligned letter pairs: 14981
317 # deletes: 196.9 317 # deletes: 196.9
318 # inserts: 385.7 318 # inserts: 385.7
319 # delOpens: 59.47 319 # delOpens: 59.46
320 # insOpens: 105.68 320 # insOpens: 105.67
321 # alignments: 2 321 # alignments: 2
322 # mean delete size: 3.31091 322 # mean delete size: 3.31147
323 # mean insert size: 3.6497 323 # mean insert size: 3.65004
324 # matchProb: 0.9889 324 # matchProb: 0.988902
325 # delOpenProb: 0.00392563 325 # delOpenProb: 0.00392498
326 # insOpenProb: 0.00697597 326 # insOpenProb: 0.00697532
327 # delExtendProb: 0.697969 327 # delExtendProb: 0.698019
328 # insExtendProb: 0.726005 328 # insExtendProb: 0.726031
329 329
330 # substitution percent identity: 67.9572 330 # substitution percent identity: 67.9622
331 331
332 # count matrix (query letters = columns, reference letters = rows): 332 # count matrix (query letters = columns, reference letters = rows):
333 # A C G T 333 # A C G T
334 # A 3093 648.8 451.2 426.6 334 # A 3093 648.8 451.2 426.6
335 # C 655.1 3008 169.9 821.4 335 # C 655 3008 168.9 821.4
336 # G 273.8 95.45 1550 71.26 336 # G 273.8 95.45 1550 71.26
337 # T 372.7 678.6 136.63 2532 337 # T 372.7 678.6 136.62 2532
338 338
339 # probability matrix (query letters = columns, reference letters = rows): 339 # probability matrix (query letters = columns, reference letters = rows):
340 # A C G T 340 # A C G T
341 # A 0.206414 0.0432982 0.0301112 0.0284695 341 # A 0.206429 0.0433015 0.0301135 0.0284716
342 # C 0.0437187 0.200742 0.0113384 0.0548169 342 # C 0.0437152 0.200756 0.0112725 0.0548209
343 # G 0.0182723 0.00636994 0.103441 0.0047556 343 # G 0.0182736 0.00637041 0.103448 0.00475595
344 # T 0.0248725 0.045287 0.00911813 0.168975 344 # T 0.0248743 0.0452903 0.00911813 0.168988
345 345
346 # delExistCost: 580 346 # delExistCost: 580
347 # insExistCost: 541 347 # insExistCost: 541
348 # delExtendCost: 33 348 # delExtendCost: 33
349 # insExtendCost: 29 349 # insExtendCost: 29
350 350
351 # score matrix (query letters = columns, reference letters = rows): 351 # score matrix (query letters = columns, reference letters = rows):
352 # A C G T 352 # A C G T
353 # A 74 -69 -42 -94 353 # A 74 -69 -42 -94
354 # C -68 70 -132 -35 354 # C -68 70 -133 -35
355 # G -70 -167 147 -180 355 # G -70 -167 147 -180
356 # T -99 -45 -131 88 356 # T -99 -45 -131 88
357 357
358 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1656 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 358 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.131 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
359 359
360 # aligned letter pairs: 14981 360 # aligned letter pairs: 14981
361 # deletes: 197 361 # deletes: 197
362 # inserts: 385.7 362 # inserts: 385.7
363 # delOpens: 58.72 363 # delOpens: 58.72
369 # delOpenProb: 0.00387646 369 # delOpenProb: 0.00387646
370 # insOpenProb: 0.00694091 370 # insOpenProb: 0.00694091
371 # delExtendProb: 0.701929 371 # delExtendProb: 0.701929
372 # insExtendProb: 0.727405 372 # insExtendProb: 0.727405
373 373
374 # substitution percent identity: 67.9308 374 # substitution percent identity: 67.9358
375 375
376 # count matrix (query letters = columns, reference letters = rows): 376 # count matrix (query letters = columns, reference letters = rows):
377 # A C G T 377 # A C G T
378 # A 3093 648.8 451.2 426.6 378 # A 3093 648.8 451.2 426.6
379 # C 656 2998 169.9 821.4 379 # C 656 2998 168.9 821.4
380 # G 273.8 95.55 1550 71.36 380 # G 273.8 95.45 1550 71.36
381 # T 372.7 678.6 136.62 2532 381 # T 372.7 678.6 136.62 2532
382 382
383 # probability matrix (query letters = columns, reference letters = rows): 383 # probability matrix (query letters = columns, reference letters = rows):
384 # A C G T 384 # A C G T
385 # A 0.206537 0.043324 0.0301292 0.0284865 385 # A 0.206552 0.0433272 0.0301314 0.0284886
386 # C 0.0438048 0.200193 0.0113452 0.0548495 386 # C 0.043808 0.200208 0.0112792 0.0548535
387 # G 0.0182832 0.00638041 0.103502 0.00476511 387 # G 0.0182845 0.0063742 0.10351 0.00476546
388 # T 0.0248873 0.0453139 0.00912288 0.169076 388 # T 0.0248891 0.0453173 0.00912355 0.169088
389 389
390 # delExistCost: 584 390 # delExistCost: 584
391 # insExistCost: 542 391 # insExistCost: 542
392 # delExtendCost: 32 392 # delExtendCost: 32
393 # insExtendCost: 29 393 # insExtendCost: 29
395 # score matrix (query letters = columns, reference letters = rows): 395 # score matrix (query letters = columns, reference letters = rows):
396 # A C G T 396 # A C G T
397 # A 74 -69 -42 -94 397 # A 74 -69 -42 -94
398 # C -68 70 -132 -35 398 # C -68 70 -132 -35
399 # G -70 -166 146 -180 399 # G -70 -166 146 -180
400 # T -99 -45 -132 88 400 # T -99 -45 -131 88
401 401
402 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.815 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 402 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.8423 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
403 403
404 # aligned letter pairs: 14981 404 # aligned letter pairs: 14981
405 # deletes: 197 405 # deletes: 197
406 # inserts: 384.7 406 # inserts: 384.7
407 # delOpens: 57.97 407 # delOpens: 57.97
413 # delOpenProb: 0.00382729 413 # delOpenProb: 0.00382729
414 # insOpenProb: 0.00689995 414 # insOpenProb: 0.00689995
415 # delExtendProb: 0.705736 415 # delExtendProb: 0.705736
416 # insExtendProb: 0.728334 416 # insExtendProb: 0.728334
417 417
418 # substitution percent identity: 67.93 418 # substitution percent identity: 67.9254
419 419
420 # count matrix (query letters = columns, reference letters = rows): 420 # count matrix (query letters = columns, reference letters = rows):
421 # A C G T 421 # A C G T
422 # A 3093 648.8 451.2 427.6 422 # A 3093 648.8 451.2 427.6
423 # C 656 2998 169.9 821.4 423 # C 656 2998 169.9 821.4
424 # G 273.8 95.75 1550 71.36 424 # G 273.8 95.75 1550 71.36
425 # T 372.7 678.6 135.61 2532 425 # T 372.7 678.6 136.62 2532
426 426
427 # probability matrix (query letters = columns, reference letters = rows): 427 # probability matrix (query letters = columns, reference letters = rows):
428 # A C G T 428 # A C G T
429 # A 0.206534 0.0433235 0.0301288 0.0285529 429 # A 0.20652 0.0433205 0.0301267 0.028551
430 # C 0.0438042 0.200191 0.011345 0.0548488 430 # C 0.0438013 0.200177 0.0113443 0.0548451
431 # G 0.0182829 0.00639368 0.103501 0.00476505 431 # G 0.0182817 0.00639325 0.103494 0.00476473
432 # T 0.024887 0.0453133 0.00905532 0.169074 432 # T 0.0248853 0.0453103 0.00912215 0.169062
433
434 # delExistCost: 586
435 # insExistCost: 543
436 # delExtendCost: 32
437 # insExtendCost: 29
438
439 # score matrix (query letters = columns, reference letters = rows):
440 # A C G T
441 # A 74 -69 -43 -94
442 # C -68 70 -132 -35
443 # G -70 -166 146 -180
444 # T -99 -45 -132 88
445
446 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.682 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
447
448 # aligned letter pairs: 14981
449 # deletes: 194.8
450 # inserts: 383.5
451 # delOpens: 57.43
452 # insOpens: 103.95
453 # alignments: 2
454 # mean delete size: 3.39196
455 # mean insert size: 3.68927
456 # matchProb: 0.989147
457 # delOpenProb: 0.00379192
458 # insOpenProb: 0.00686348
459 # delExtendProb: 0.705185
460 # insExtendProb: 0.728944
461
462 # substitution percent identity: 67.9249
463
464 # count matrix (query letters = columns, reference letters = rows):
465 # A C G T
466 # A 3093 649.9 451.1 427.6
467 # C 656 2998 169.9 821.4
468 # G 273.8 95.75 1550 71.46
469 # T 372.7 678.6 135.62 2532
470
471 # probability matrix (query letters = columns, reference letters = rows):
472 # A C G T
473 # A 0.206519 0.0433937 0.0301199 0.0285508
474 # C 0.043801 0.200176 0.0113442 0.0548447
475 # G 0.0182816 0.00639321 0.103493 0.00477137
476 # T 0.0248851 0.04531 0.00905532 0.169061
477
478 # delExistCost: 587
479 # insExistCost: 543
480 # delExtendCost: 32
481 # insExtendCost: 29
482
483 # score matrix (query letters = columns, reference letters = rows):
484 # A C G T
485 # A 74 -68 -42 -94
486 # C -68 70 -132 -35
487 # G -70 -166 147 -180
488 # T -99 -45 -132 88
489
490 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2049 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
491
492 # aligned letter pairs: 14981
493 # deletes: 195.9
494 # inserts: 384.7
495 # delOpens: 57.66
496 # insOpens: 104.5
497 # alignments: 2
498 # mean delete size: 3.3975
499 # mean insert size: 3.68134
500 # matchProb: 0.989096
501 # delOpenProb: 0.00380691
502 # insOpenProb: 0.00689944
503 # delExtendProb: 0.705666
504 # insExtendProb: 0.72836
505
506 # substitution percent identity: 67.9195
507
508 # count matrix (query letters = columns, reference letters = rows):
509 # A C G T
510 # A 3093 649.9 451.2 427.6
511 # C 656.1 2998 169.9 821.4
512 # G 273.8 95.74 1550 71.46
513 # T 373.7 678.6 135.62 2532
514
515 # probability matrix (query letters = columns, reference letters = rows):
516 # A C G T
517 # A 0.206503 0.0433902 0.0301241 0.0285485
518 # C 0.0438042 0.20016 0.0113433 0.0548404
519 # G 0.0182801 0.00639203 0.103485 0.00477099
520 # T 0.0249499 0.0453064 0.0090546 0.169048
521
522 # delExistCost: 586
523 # insExistCost: 543
524 # delExtendCost: 32
525 # insExtendCost: 29
526
527 # score matrix (query letters = columns, reference letters = rows):
528 # A C G T
529 # A 74 -68 -42 -94
530 # C -68 70 -132 -35
531 # G -70 -166 147 -180
532 # T -99 -45 -132 88
533
534 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2167 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
535
536 # aligned letter pairs: 14981
537 # deletes: 196
538 # inserts: 384.7
539 # delOpens: 57.87
540 # insOpens: 104.51
541 # alignments: 2
542 # mean delete size: 3.3869
543 # mean insert size: 3.68099
544 # matchProb: 0.989081
545 # delOpenProb: 0.00382071
546 # insOpenProb: 0.0069
547 # delExtendProb: 0.704745
548 # insExtendProb: 0.728334
549
550 # substitution percent identity: 67.9245
551
552 # count matrix (query letters = columns, reference letters = rows):
553 # A C G T
554 # A 3093 649.9 451.2 427.6
555 # C 656.1 2998 169.9 821.4
556 # G 273.8 95.64 1550 71.46
557 # T 372.7 678.6 135.62 2532
558
559 # probability matrix (query letters = columns, reference letters = rows):
560 # A C G T
561 # A 0.206518 0.0433934 0.0301264 0.0285506
562 # C 0.0438074 0.200175 0.0113441 0.0548444
563 # G 0.0182815 0.00638583 0.103493 0.00477134
564 # T 0.024885 0.0453097 0.00905527 0.16906
433 565
434 # delExistCost: 586 566 # delExistCost: 586
435 # insExistCost: 543 567 # insExistCost: 543
436 # delExtendCost: 32 568 # delExtendCost: 32
437 # insExtendCost: 29 569 # insExtendCost: 29
441 # A 74 -69 -42 -94 573 # A 74 -69 -42 -94
442 # C -68 70 -132 -35 574 # C -68 70 -132 -35
443 # G -70 -166 147 -180 575 # G -70 -166 147 -180
444 # T -99 -45 -132 88 576 # T -99 -45 -132 88
445 577
446 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.0834 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB 578 # lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.0834 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3
447 579
448 # aligned letter pairs: 14981 580 # aligned letter pairs: 14981
449 # deletes: 196 581 # deletes: 196
450 # inserts: 384.7 582 # inserts: 384.7
451 # delOpens: 57.87 583 # delOpens: 57.87