Mercurial > repos > iuc > last

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

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"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 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -r5 -q5 -a15 -b3 -A15 -B3 /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 6 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -r5 -q5 -a15 -b3 -A15 -B3 /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
7 7
8 # aligned letter pairs: 14938.3 8 # aligned letter pairs: 14938.4
9 # deletes: 664.27 9 # deletes: 664.28
10 # inserts: 839.49 10 # inserts: 839.52
11 # delOpens: 344.82 11 # delOpens: 344.93
12 # insOpens: 404.93 12 # insOpens: 404.94
13 # alignments: 3 13 # alignments: 3
14 # mean delete size: 1.92643 14 # mean delete size: 1.92584
15 # mean insert size: 2.07317 15 # mean insert size: 2.0732
16 # matchProb: 0.951966 16 # matchProb: 0.951959
17 # delOpenProb: 0.0219742 17 # delOpenProb: 0.0219809
18 # insOpenProb: 0.0258048 18 # insOpenProb: 0.0258051
19 # delExtendProb: 0.480904 19 # delExtendProb: 0.480746
20 # insExtendProb: 0.517648 20 # insExtendProb: 0.517653
21 21
22 # substitution percent identity: 71.9318 22 # substitution percent identity: 71.9301
23 23
24 # count matrix (query letters = columns, reference letters = rows): 24 # count matrix (query letters = columns, reference letters = rows):
25 # A C G T 25 # A C G T
26 # A 3296.3 533.237 387.81 392.24 26 # A 3296.3 533.242 387.82 392.35
27 # C 553.59 3241.5 182.39 686.22 27 # C 553.59 3241.5 182.39 686.23
28 # G 232.54 102.399 1565.4 84.91 28 # G 232.64 102.401 1565.4 84.91
29 # T 335.173 558.68 147.16 2651 29 # T 335.174 558.781 147.17 2651
30 30
31 # probability matrix (query letters = columns, reference letters = rows): 31 # probability matrix (query letters = columns, reference letters = rows):
32 # A C G T 32 # A C G T
33 # A 0.22048 0.0356667 0.0259395 0.0262358 33 # A 0.220475 0.0356662 0.0259396 0.0262426
34 # C 0.0370281 0.216815 0.0121996 0.0458993 34 # C 0.0370272 0.21681 0.0121993 0.0458989
35 # G 0.0155539 0.00684918 0.104705 0.00567939 35 # G 0.0155603 0.00684915 0.104703 0.00567926
36 # T 0.0224188 0.0373685 0.00984312 0.177318 36 # T 0.0224183 0.0373744 0.00984356 0.177314
37 37
38 # delExistCost: 343 38 # delExistCost: 342
39 # insExistCost: 341 39 # insExistCost: 341
40 # delExtendCost: 64 40 # delExtendCost: 65
41 # insExtendCost: 58 41 # insExtendCost: 58
42 42
43 # score matrix (query letters = columns, reference letters = rows): 43 # score matrix (query letters = columns, reference letters = rows):
44 # A C G T 44 # A C G T
45 # A 76 -90 -59 -104 45 # A 76 -90 -59 -104
46 # C -87 73 -128 -55 46 # C -87 73 -128 -55
47 # G -89 -164 145 -167 47 # G -89 -164 145 -167
48 # T -112 -66 -127 90 48 # T -112 -66 -127 90
49 49
50 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.3148 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 50 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1872 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
51 51
52 # aligned letter pairs: 14338.3 52 # aligned letter pairs: 14397.9
53 # deletes: 327.44 53 # deletes: 322.93
54 # inserts: 474.13 54 # inserts: 481.67
55 # delOpens: 166.73 55 # delOpens: 166.26
56 # insOpens: 216.45 56 # insOpens: 218.88
57 # alignments: 10 57 # alignments: 10
58 # mean delete size: 1.96389 58 # mean delete size: 1.94232
59 # mean insert size: 2.19048 59 # mean insert size: 2.20061
60 # matchProb: 0.973244 60 # matchProb: 0.973223
61 # delOpenProb: 0.0113172 61 # delOpenProb: 0.0112383
62 # insOpenProb: 0.014692 62 # insOpenProb: 0.0147951
63 # delExtendProb: 0.490807 63 # delExtendProb: 0.485152
64 # insExtendProb: 0.54348 64 # insExtendProb: 0.545581
65 65
66 # substitution percent identity: 70.6019 66 # substitution percent identity: 70.5263
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 3076.4 546.106 412.41 369.93 70 # A 3087.2 550.976 415.27 370.69
71 # C 561.42 2983.2 149.401 735.35 71 # C 567.6 2996 150.293 740.47
72 # G 245.82 80.868 1562.07 66.655 72 # G 246.31 81.558 1563.06 66.884
73 # T 326.724 603.44 120.838 2510.5 73 # T 329.603 608.12 121.409 2521.4
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 0.214366 0.0380532 0.0287371 0.0257771 77 # A 0.214138 0.0382175 0.0288045 0.0257123
78 # C 0.0391203 0.207872 0.0104104 0.0512399 78 # C 0.0393706 0.207812 0.0104248 0.0513615
79 # G 0.017129 0.00563496 0.108846 0.00464458 79 # G 0.0170849 0.00565713 0.108419 0.0046393
80 # T 0.0227664 0.0420483 0.0084201 0.174934 80 # T 0.0228624 0.0421812 0.00842133 0.174893
81 81
82 # delExistCost: 405 82 # delExistCost: 404
83 # insExistCost: 402 83 # insExistCost: 401
84 # delExtendCost: 64 84 # delExtendCost: 65
85 # insExtendCost: 54 85 # insExtendCost: 54
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 77 -81 -49 -104 89 # A 76 -81 -49 -104
90 # C -79 73 -142 -42 90 # C -78 73 -142 -42
91 # G -80 -181 146 -186 91 # G -79 -180 146 -186
92 # T -108 -52 -142 90 92 # T -108 -52 -141 89
93 93
94 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4973 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 94 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.4093 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
95 95
96 # aligned letter pairs: 14657.7 96 # aligned letter pairs: 14586.1
97 # deletes: 218.21 97 # deletes: 207.97
98 # inserts: 385.36 98 # inserts: 370.61
99 # delOpens: 102.2 99 # delOpens: 97.51
100 # insOpens: 152.161 100 # insOpens: 146.118
101 # alignments: 10 101 # alignments: 10
102 # mean delete size: 2.13513 102 # mean delete size: 2.13281
103 # mean insert size: 2.53258 103 # mean insert size: 2.53637
104 # matchProb: 0.982218 104 # matchProb: 0.982843
105 # delOpenProb: 0.00684846 105 # delOpenProb: 0.00657043
106 # insOpenProb: 0.0101964 106 # insOpenProb: 0.00984574
107 # delExtendProb: 0.531644 107 # delExtendProb: 0.531134
108 # insExtendProb: 0.605146 108 # insExtendProb: 0.605736
109 109
110 # substitution percent identity: 69.4007 110 # substitution percent identity: 69.4001
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 3091.6 591.394 434.35 391.72 114 # A 3071.2 586.39 432.58 390.03
115 # C 605.8 2996.8 154.6091 779.75 115 # C 602.06 2979.4 154.2015 775.84
116 # G 260.46 83.802 1568.22 67.9713 116 # G 260.13 83.439 1563.17 67.5164
117 # T 351.852 646.07 124.676 2532.5 117 # T 349.003 643.71 124.293 2522.3
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 0.210577 0.0402814 0.0295847 0.0266811 121 # A 0.21028 0.0401492 0.0296181 0.0267048
122 # C 0.0412626 0.20412 0.0105308 0.0531108 122 # C 0.0412221 0.203995 0.0105579 0.0531206
123 # G 0.0177406 0.00570797 0.106816 0.0046297 123 # G 0.0178107 0.00571294 0.107028 0.00462274
124 # T 0.0239655 0.0440055 0.008492 0.172495 124 # T 0.0238957 0.0440738 0.00851015 0.172698
125 125
126 # delExistCost: 466 126 # delExistCost: 469
127 # insExistCost: 457 127 # insExistCost: 460
128 # delExtendCost: 57 128 # delExtendCost: 57
129 # insExtendCost: 45 129 # insExtendCost: 45
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 76 -75 -45 -100 133 # A 76 -75 -45 -100
134 # C -73 72 -140 -38 134 # C -73 72 -140 -38
135 # G -75 -178 147 -185 135 # G -74 -178 147 -185
136 # T -103 -48 -140 89 136 # T -103 -48 -140 89
137 137
138 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.5154 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 138 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4064 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
139 139
140 # aligned letter pairs: 14615.5 140 # aligned letter pairs: 14614.3
141 # deletes: 176.132 141 # deletes: 173.005
142 # inserts: 337.667 142 # inserts: 333.783
143 # delOpens: 73.361 143 # delOpens: 71.881
144 # insOpens: 117.993 144 # insOpens: 116.037
145 # alignments: 8 145 # alignments: 8
146 # mean delete size: 2.40089 146 # mean delete size: 2.40683
147 # mean insert size: 2.86175 147 # mean insert size: 2.87652
148 # matchProb: 0.986477 148 # matchProb: 0.986705
149 # delOpenProb: 0.00495152 149 # delOpenProb: 0.00485315
150 # insOpenProb: 0.00796397 150 # insOpenProb: 0.0078344
151 # delExtendProb: 0.583489 151 # delExtendProb: 0.584515
152 # insExtendProb: 0.650564 152 # insExtendProb: 0.652358
153 153
154 # substitution percent identity: 68.8798 154 # substitution percent identity: 68.8464
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 3057.2 603.516 434.56 399.47 158 # A 3054 603.416 435.41 400.71
159 # C 620.42 2962.4 159.336 789.74 159 # C 620.59 2961.2 159.53 789.72
160 # G 264.31 86.899 1557.17 68.449 160 # G 265.6 86.864 1557.13 68.4163
161 # T 353.847 650 125.897 2508.2 161 # T 354.125 649.76 125.994 2505.1
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 0.208805 0.0412198 0.0296802 0.0272836 165 # A 0.208641 0.0412238 0.0297461 0.0273755
166 # C 0.0423743 0.20233 0.0108826 0.0539388 166 # C 0.0423971 0.202301 0.0108987 0.0539516
167 # G 0.0180522 0.00593515 0.106354 0.00467503 167 # G 0.0181451 0.00593432 0.106379 0.00467402
168 # T 0.0241675 0.0443946 0.00859869 0.171309 168 # T 0.0241929 0.0443899 0.00860758 0.171142
169 169
170 # delExistCost: 514 170 # delExistCost: 516
171 # insExistCost: 497 171 # insExistCost: 500
172 # delExtendCost: 49 172 # delExtendCost: 49
173 # insExtendCost: 39 173 # insExtendCost: 38
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 75 -72 -44 -98 177 # A 75 -72 -44 -98
178 # C -71 72 -137 -37 178 # C -70 72 -136 -37
179 # G -73 -174 146 -184 179 # G -72 -174 146 -184
180 # T -102 -46 -138 89 180 # T -102 -46 -138 89
181 181
182 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.0742 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 182 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2552 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
183 183
184 # aligned letter pairs: 14806.2 184 # aligned letter pairs: 14846.5
185 # deletes: 167.925 185 # deletes: 168.42
186 # inserts: 326.866 186 # inserts: 340.671
187 # delOpens: 62.871 187 # delOpens: 63.085
188 # insOpens: 105.559 188 # insOpens: 107.237
189 # alignments: 7 189 # alignments: 7
190 # mean delete size: 2.67095 190 # mean delete size: 2.66973
191 # mean insert size: 3.09652 191 # mean insert size: 3.1768
192 # matchProb: 0.988224 192 # matchProb: 0.988132
193 # delOpenProb: 0.00419626 193 # delOpenProb: 0.00419872
194 # insOpenProb: 0.00704543 194 # insOpenProb: 0.00713732
195 # delExtendProb: 0.625601 195 # delExtendProb: 0.62543
196 # insExtendProb: 0.677057 196 # insExtendProb: 0.685218
197 197
198 # substitution percent identity: 68.3956 198 # substitution percent identity: 68.3619
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 3074.6 626.457 444.21 418.05 202 # A 3085.6 630.559 444.71 420.06
203 # C 637.55 2977.3 164.69 809.88 203 # C 641.49 2985.3 165.39 812.21
204 # G 269.41 92.415 1559.3 69.29 204 # G 270.72 92.7 1563.4 69.63
205 # T 359.136 664.2 129.482 2527.2 205 # T 360.446 667.21 130.014 2532.3
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 0.207419 0.042262 0.0299673 0.0282025 209 # A 0.207481 0.0423998 0.029903 0.0282455
210 # C 0.0430104 0.200854 0.0111103 0.0546361 210 # C 0.0431348 0.200736 0.0111211 0.0546143
211 # G 0.0181749 0.0062345 0.105193 0.00467444 211 # G 0.0182037 0.0062333 0.105126 0.00468203
212 # T 0.024228 0.0448082 0.00873511 0.17049 212 # T 0.024237 0.0448643 0.00874235 0.170276
213 213
214 # delExistCost: 546 214 # delExistCost: 546
215 # insExistCost: 519 215 # insExistCost: 521
216 # delExtendCost: 42 216 # delExtendCost: 42
217 # insExtendCost: 35 217 # insExtendCost: 34
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 75 -70 -43 -95 221 # A 75 -70 -44 -95
222 # C -69 71 -134 -36 222 # C -69 71 -134 -36
223 # G -71 -169 146 -183 223 # G -71 -169 146 -183
224 # T -101 -45 -136 88 224 # T -101 -45 -136 88
225 225
226 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1177 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 226 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.0533 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
227 227
228 # aligned letter pairs: 14896.9 228 # aligned letter pairs: 14896.8
229 # deletes: 177.451 229 # deletes: 179.049
230 # inserts: 344.879 230 # inserts: 347.285
231 # delOpens: 59.29 231 # delOpens: 59.728
232 # insOpens: 103.311 232 # insOpens: 103.021
233 # alignments: 5 233 # alignments: 5
234 # mean delete size: 2.99293 234 # mean delete size: 2.99774
235 # mean insert size: 3.33826 235 # mean insert size: 3.37101
236 # matchProb: 0.988809 236 # matchProb: 0.988799
237 # delOpenProb: 0.00393548 237 # delOpenProb: 0.00396454
238 # insOpenProb: 0.00685746 238 # insOpenProb: 0.00683818
239 # delExtendProb: 0.66588 239 # delExtendProb: 0.666415
240 # insExtendProb: 0.700443 240 # insExtendProb: 0.703353
241 241
242 # substitution percent identity: 68.1858 242 # substitution percent identity: 68.1898
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 3084.6 635.337 445.51 422.24 246 # A 3083.6 634.137 445.41 422.54
247 # C 649.18 2997.2 169.11 816.24 247 # C 648.98 2997.2 169.11 816.24
248 # G 273.53 93.848 1562.4 71.64 248 # G 273.63 93.839 1562.4 71.58
249 # T 365.354 674.15 132.032 2532.3 249 # T 365.254 674.05 132.042 2532.3
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 0.206678 0.0425696 0.0298506 0.0282914 253 # A 0.206644 0.0424959 0.0298486 0.028316
254 # C 0.0434971 0.200822 0.0113309 0.0546907 254 # C 0.0434906 0.200854 0.0113327 0.0546993
255 # G 0.0183274 0.00628811 0.104686 0.00480011 255 # G 0.018337 0.0062885 0.104702 0.00479684
256 # T 0.0244799 0.0451702 0.00884656 0.169672 256 # T 0.024477 0.0451706 0.00884863 0.169699
257 257
258 # delExistCost: 567 258 # delExistCost: 566
259 # insExistCost: 531 259 # insExistCost: 532
260 # delExtendCost: 37 260 # delExtendCost: 37
261 # insExtendCost: 32 261 # insExtendCost: 32
262 262
263 # score matrix (query letters = columns, reference letters = rows): 263 # score matrix (query letters = columns, reference letters = rows):
264 # A C G T 264 # A C G T
265 # A 75 -70 -43 -95 265 # A 75 -70 -43 -95
266 # C -68 71 -132 -35 266 # C -68 71 -132 -36
267 # G -70 -168 146 -181 267 # G -70 -168 146 -181
268 # T -100 -45 -135 88 268 # T -100 -45 -135 88
269 269
270 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.5512 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 270 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.3763 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
271 271
272 # aligned letter pairs: 14897.4 272 # aligned letter pairs: 14897.3
273 # deletes: 183.45 273 # deletes: 182.446
274 # inserts: 350.682 274 # inserts: 350.271
275 # delOpens: 57.728 275 # delOpens: 57.786
276 # insOpens: 101.786 276 # insOpens: 101.442
277 # alignments: 5 277 # alignments: 5
278 # mean delete size: 3.17783 278 # mean delete size: 3.15727
279 # mean insert size: 3.44529 279 # mean insert size: 3.45292
280 # matchProb: 0.989012 280 # matchProb: 0.989031
281 # delOpenProb: 0.00383246 281 # delOpenProb: 0.00383641
282 # insOpenProb: 0.00675739 282 # insOpenProb: 0.00673473
283 # delExtendProb: 0.68532 283 # delExtendProb: 0.683271
284 # insExtendProb: 0.709748 284 # insExtendProb: 0.71039
285 285
286 # substitution percent identity: 68.1676 286 # substitution percent identity: 68.1657
287 287
288 # count matrix (query letters = columns, reference letters = rows): 288 # count matrix (query letters = columns, reference letters = rows):
289 # A C G T 289 # A C G T
290 # A 3083.6 635.04 445.71 423.87 290 # A 3083.6 635.136 445.71 423.86
291 # C 650.27 2996.2 169.49 816.21 291 # C 650.36 2996.2 169.48 816.19
292 # G 272.96 94.054 1562.4 71.81 292 # G 272.95 94.064 1561.4 71.9
293 # T 365.777 674.06 132.018 2532.4 293 # T 365.571 674.06 131.918 2532.4
294 294
295 # probability matrix (query letters = columns, reference letters = rows): 295 # probability matrix (query letters = columns, reference letters = rows):
296 # A C G T 296 # A C G T
297 # A 0.206594 0.0425463 0.0298616 0.0283983 297 # A 0.206609 0.0425557 0.0298637 0.0283997
298 # C 0.0435666 0.200739 0.0113555 0.0546843 298 # C 0.0435758 0.200753 0.0113556 0.0546868
299 # G 0.0182877 0.00630141 0.104677 0.00481111 299 # G 0.0182884 0.00630253 0.104618 0.00481749
300 # T 0.0245062 0.0451605 0.00884491 0.169665 300 # T 0.0244942 0.0451638 0.00883885 0.169677
301 301
302 # delExistCost: 578 302 # delExistCost: 577
303 # insExistCost: 536 303 # insExistCost: 537
304 # delExtendCost: 34 304 # delExtendCost: 34
305 # insExtendCost: 31 305 # insExtendCost: 31
306 306
307 # score matrix (query letters = columns, reference letters = rows): 307 # score matrix (query letters = columns, reference letters = rows):
308 # A C G T 308 # A C G T
309 # A 75 -70 -43 -94 309 # A 75 -70 -43 -94
310 # C -68 71 -132 -36 310 # C -68 71 -132 -36
311 # G -71 -168 146 -180 311 # G -71 -168 146 -180
312 # T -100 -45 -135 88 312 # T -100 -45 -135 88
313 313
314 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.3765 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 314 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.3676 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
315 315
316 # aligned letter pairs: 14897.3 316 # aligned letter pairs: 14897.3
317 # deletes: 186.949 317 # deletes: 186.95
318 # inserts: 354.265 318 # inserts: 354.262
319 # delOpens: 56.756 319 # delOpens: 56.767
320 # insOpens: 101.214 320 # insOpens: 100.893
321 # alignments: 5 321 # alignments: 5
322 # mean delete size: 3.29391 322 # mean delete size: 3.29329
323 # mean insert size: 3.50016 323 # mean insert size: 3.51126
324 # matchProb: 0.989113 324 # matchProb: 0.989133
325 # delOpenProb: 0.00376834 325 # delOpenProb: 0.00376915
326 # insOpenProb: 0.00672015 326 # insOpenProb: 0.00669898
327 # delExtendProb: 0.696409 327 # delExtendProb: 0.696352
328 # insExtendProb: 0.714299 328 # insExtendProb: 0.715202
329 329
330 # substitution percent identity: 68.1476 330 # substitution percent identity: 68.1477
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 3081.6 633.831 445.71 424.07 334 # A 3081.6 633.831 445.71 424.07
335 # C 650.26 2986.2 169.38 816.09 335 # C 650.26 2986.2 169.38 816.08
336 # G 272.84 94.051 1561.4 71.9 336 # G 272.84 94.051 1561.4 71.9
337 # T 365.569 674.07 131.791 2532.4 337 # T 365.569 674.17 131.691 2532.4
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 0.206664 0.0425072 0.029891 0.0284398 341 # A 0.206664 0.0425072 0.0298911 0.0284398
342 # C 0.0436089 0.200266 0.0113593 0.0547301 342 # C 0.043609 0.200266 0.0113593 0.0547295
343 # G 0.0182977 0.00630742 0.104714 0.00482189 343 # G 0.0182977 0.00630743 0.104714 0.00482189
344 # T 0.0245165 0.0452057 0.00883841 0.169833 344 # T 0.0245165 0.0452125 0.00883171 0.169833
345 345
346 # delExistCost: 584 346 # delExistCost: 583
347 # insExistCost: 539 347 # insExistCost: 540
348 # delExtendCost: 33 348 # delExtendCost: 33
349 # insExtendCost: 30 349 # insExtendCost: 30
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 75 -70 -43 -94 353 # A 75 -70 -43 -94
354 # C -68 71 -132 -35 354 # C -68 71 -132 -35
355 # G -71 -168 146 -180 355 # G -71 -168 146 -180
356 # T -100 -45 -135 88 356 # T -100 -45 -135 88
357 357
358 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.5205 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 358 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.511 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
359 359
360 # aligned letter pairs: 14897.4 360 # aligned letter pairs: 14897.4
361 # deletes: 188.951 361 # deletes: 188.952
362 # inserts: 357.176 362 # inserts: 357.073
363 # delOpens: 56.362 363 # delOpens: 56.483
364 # insOpens: 100.973 364 # insOpens: 100.742
365 # alignments: 5 365 # alignments: 5
366 # mean delete size: 3.35245 366 # mean delete size: 3.34529
367 # mean insert size: 3.53734 367 # mean insert size: 3.54443
368 # matchProb: 0.989155 368 # matchProb: 0.989162
369 # delOpenProb: 0.00374231 369 # delOpenProb: 0.00375038
370 # insOpenProb: 0.00670439 370 # insOpenProb: 0.0066891
371 # delExtendProb: 0.701711 371 # delExtendProb: 0.701072
372 # insExtendProb: 0.717302 372 # insExtendProb: 0.717867
373 373
374 # substitution percent identity: 68.1403 374 # substitution percent identity: 68.1444
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 3081.6 634.732 445.81 423.98 378 # A 3081.6 633.732 445.81 423.98
379 # C 650.18 2986.2 169.39 816.1 379 # C 650.18 2986.2 169.39 816.1
380 # G 273.05 94.134 1561.4 71.9 380 # G 273.05 94.134 1561.4 71.9
381 # T 365.574 674.07 131.782 2531.4 381 # T 365.574 674.17 131.782 2531.4
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 0.206662 0.0425672 0.0298975 0.0284335 385 # A 0.206675 0.0425027 0.0298993 0.0284352
386 # C 0.0436032 0.200264 0.0113598 0.0547303 386 # C 0.0436058 0.200276 0.0113605 0.0547336
387 # G 0.0183116 0.00631293 0.104713 0.00482185 387 # G 0.0183127 0.00631331 0.104719 0.00482214
388 # T 0.0245166 0.0452053 0.00883773 0.169764 388 # T 0.0245181 0.0452147 0.00883826 0.169774
389 389
390 # delExistCost: 587 390 # delExistCost: 586
391 # insExistCost: 541 391 # insExistCost: 541
392 # delExtendCost: 32 392 # delExtendCost: 32
393 # insExtendCost: 30 393 # insExtendCost: 30
394 394
395 # score matrix (query letters = columns, reference letters = rows): 395 # score matrix (query letters = columns, reference letters = rows):
397 # A 75 -70 -43 -94 397 # A 75 -70 -43 -94
398 # C -68 71 -132 -35 398 # C -68 71 -132 -35
399 # G -71 -168 146 -180 399 # G -71 -168 146 -180
400 # T -100 -45 -135 88 400 # T -100 -45 -135 88
401 401
402 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4821 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 402 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.494 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
403 403
404 # aligned letter pairs: 14897.4 404 # aligned letter pairs: 14897.4
405 # deletes: 189.355 405 # deletes: 190.558
406 # inserts: 357.265 406 # inserts: 358.367
407 # delOpens: 56.08 407 # delOpens: 56.231
408 # insOpens: 100.658 408 # insOpens: 100.769
409 # alignments: 5 409 # alignments: 5
410 # mean delete size: 3.37652 410 # mean delete size: 3.38884
411 # mean insert size: 3.5493 411 # mean insert size: 3.55632
412 # matchProb: 0.989194 412 # matchProb: 0.989177
413 # delOpenProb: 0.00372374 413 # delOpenProb: 0.0037337
414 # insOpenProb: 0.00668374 414 # insOpenProb: 0.00669099
415 # delExtendProb: 0.703837 415 # delExtendProb: 0.704914
416 # insExtendProb: 0.718254 416 # insExtendProb: 0.718811
417 417
418 # substitution percent identity: 68.1453 418 # substitution percent identity: 68.1458
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 3081.6 633.731 445.81 423.98 422 # A 3081.6 633.732 445.81 423.98
423 # C 650.08 2986.2 169.39 816.1 423 # C 650.08 2986.2 169.39 816.1
424 # G 273.05 94.136 1561.4 71.9 424 # G 273.05 94.125 1561.4 71.9
425 # T 365.674 674.07 131.672 2531.4 425 # T 365.574 674.07 131.672 2531.4
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 0.206677 0.0425032 0.0298997 0.0284356 429 # A 0.206679 0.0425036 0.0298999 0.0284358
430 # C 0.0435997 0.200279 0.0113607 0.0547344 430 # C 0.0436 0.200281 0.0113608 0.0547348
431 # G 0.018313 0.00631353 0.10472 0.0048222 431 # G 0.0183131 0.00631284 0.104721 0.00482224
432 # T 0.0245251 0.0452087 0.00883101 0.169776 432 # T 0.0245186 0.045209 0.00883107 0.169778
433 433
434 # delExistCost: 588 434 # delExistCost: 588
435 # insExistCost: 541 435 # insExistCost: 541
436 # delExtendCost: 32 436 # delExtendCost: 32
437 # insExtendCost: 30 437 # insExtendCost: 30
441 # A 75 -70 -43 -94 441 # A 75 -70 -43 -94
442 # C -68 71 -132 -35 442 # C -68 71 -132 -35
443 # G -71 -168 146 -180 443 # G -71 -168 146 -180
444 # T -100 -45 -135 88 444 # T -100 -45 -135 88
445 445
446 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4704 -p- /home/rdallet/galaxy/tools/last/test-data/humdb /tmp/tmpow095T/tmp/tmpmqx0kk84 446 # lastal -j7 -D1000000 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4704 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpc7ashbco
447 447
448 # aligned letter pairs: 14897.4 448 # aligned letter pairs: 14897.4
449 # deletes: 188.951 449 # deletes: 188.951
450 # inserts: 356.964 450 # inserts: 356.964
451 # delOpens: 55.8286 451 # delOpens: 55.8286