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0
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1 # lastal version: 956
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2 # maximum percent identity: 100
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3 # scale of score parameters: 4.5512
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4 # scale used while training: 91.024
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5
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6 # lastal -j7 -S1 -P8 -r5 -q5 -a15 -b3 ps_tail_near /tmp/tmpLzO6pN
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7
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8 # aligned letter pairs: 645322.5
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9 # deletes: 53030.076
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10 # inserts: 52961.894
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11 # delOpens: 27321.807
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12 # insOpens: 27522.598
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13 # alignments: 1715
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14 # mean delete size: 1.94094
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15 # mean insert size: 1.92431
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16 # delOpenProb: 0.0389264
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17 # insOpenProb: 0.0392125
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18 # delExtendProb: 0.484787
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19 # insExtendProb: 0.480332
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20
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21 # delExistCost: 290
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22 # insExistCost: 288
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23 # delExtendCost: 66
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24 # insExtendCost: 67
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25
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26 # substitution percent identity: 80.7124
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27
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28 # count matrix (query letters = columns, reference letters = rows):
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29 # A C G T
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30 # A 167864.68 8440.25411 14824.7457 10778.6026
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31 # C 8305.6793 92568.78 5527.30401 14593.1965
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32 # G 14303.26163 5657.737106 91602.82 8233.2595
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33 # T 10559.8569 14962.3325 8284.02998 168830.9
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34
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35 # probability matrix (query letters = columns, reference letters = rows):
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36 # A C G T
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37 # A 0.260119 0.0130788 0.0229721 0.0167023
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38 # C 0.0128703 0.143442 0.00856498 0.0226133
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39 # G 0.022164 0.0087671 0.141946 0.0127581
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40 # T 0.0163633 0.0231853 0.0128367 0.261616
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41
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42 # score matrix (query letters = columns, reference letters = rows):
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43 # A C G T
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44 # A 89 -137 -85 -161
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45 # C -138 128 -128 -87
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46 # G -87 -126 129 -138
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47 # T -163 -85 -138 89
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48
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49 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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50
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51 # aligned letter pairs: 657515.8
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52 # deletes: 54576.405
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53 # inserts: 54467.682
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54 # delOpens: 29338.269
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55 # insOpens: 29782.167
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56 # alignments: 1810
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57 # mean delete size: 1.86025
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58 # mean insert size: 1.82887
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59 # delOpenProb: 0.0408357
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60 # insOpenProb: 0.0414535
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61 # delExtendProb: 0.462437
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62 # insExtendProb: 0.453214
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63
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64 # delExistCost: 277
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65 # insExistCost: 273
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66 # delExtendCost: 70
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67 # insExtendCost: 72
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68
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69 # substitution percent identity: 82.8127
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70
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71 # count matrix (query letters = columns, reference letters = rows):
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72 # A C G T
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73 # A 172119.6 6326.08979 16347.823382 7375.214
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74 # C 6451.841992 99738.42 4226.312847 16076.55299
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75 # G 15766.519333 4374.698921 99296.38 6396.707638
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76 # T 7212.54884 16138.520254 6316.90954 173353.79
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77
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78 # probability matrix (query letters = columns, reference letters = rows):
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79 # A C G T
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80 # A 0.261772 0.00962117 0.0248629 0.0112167
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81 # C 0.00981242 0.151689 0.00642768 0.0244504
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82 # G 0.0239788 0.00665335 0.151017 0.00972857
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83 # T 0.0109694 0.0245446 0.0096072 0.263649
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84
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85 # score matrix (query letters = columns, reference letters = rows):
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86 # A C G T
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87 # A 93 -165 -79 -194
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88 # C -163 128 -159 -81
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89 # G -81 -156 129 -164
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90 # T -196 -81 -166 93
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91
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92 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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93
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94 # aligned letter pairs: 668948.5
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95 # deletes: 57981.575
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96 # inserts: 58221.335
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97 # delOpens: 31807.825
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98 # insOpens: 32507.3002
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99 # alignments: 1869
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100 # mean delete size: 1.82287
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101 # mean insert size: 1.79102
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102 # delOpenProb: 0.0432681
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103 # insOpenProb: 0.0442196
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104 # delExtendProb: 0.451415
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105 # insExtendProb: 0.44166
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106
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107 # delExistCost: 268
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108 # insExistCost: 263
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109 # delExtendCost: 72
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110 # insExtendCost: 74
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111
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112 # substitution percent identity: 83.6608
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113
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114 # count matrix (query letters = columns, reference letters = rows):
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115 # A C G T
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116 # A 177183.17 5504.869925 17286.571547 6133.25055
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117 # C 5702.212901 102462.3342 3582.471673 16864.00328
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118 # G 16580.481274 3711.7686366 101712.376 5579.04028
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119 # T 6057.34017 16811.744918 5490.65923 178306.52
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120
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121 # probability matrix (query letters = columns, reference letters = rows):
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122 # A C G T
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123 # A 0.26486 0.00822889 0.0258406 0.00916822
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124 # C 0.00852388 0.153165 0.00535521 0.025209
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125 # G 0.0247851 0.00554849 0.152044 0.00833976
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126 # T 0.00905474 0.0251308 0.00820765 0.266539
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127
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128 # score matrix (query letters = columns, reference letters = rows):
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129 # A C G T
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130 # A 94 -180 -75 -213
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131 # C -176 129 -175 -78
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132 # G -78 -172 130 -178
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133 # T -214 -78 -180 93
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134
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135 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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136
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137 # aligned letter pairs: 668279.1
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138 # deletes: 59484.735
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139 # inserts: 59870.687
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140 # delOpens: 32991.303
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141 # insOpens: 33795.3266
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142 # alignments: 1880
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143 # mean delete size: 1.80304
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144 # mean insert size: 1.77157
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145 # delOpenProb: 0.0447676
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146 # insOpenProb: 0.0458586
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147 # delExtendProb: 0.445382
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148 # insExtendProb: 0.435528
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149
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150 # delExistCost: 263
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151 # insExistCost: 257
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152 # delExtendCost: 74
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153 # insExtendCost: 76
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154
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155 # substitution percent identity: 84.0864
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156
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157 # count matrix (query letters = columns, reference letters = rows):
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158 # A C G T
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159 # A 177957.15 4999.54926 17535.51502 5493.75775
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160 # C 5256.33764 102819.702 3231.546315 17061.52644
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161 # G 16831.203718 3359.0874106 102142.74 5159.982219
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162 # T 5414.11539 16979.044906 5031.32483 179044.28
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163
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164 # probability matrix (query letters = columns, reference letters = rows):
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165 # A C G T
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166 # A 0.266277 0.00748081 0.0262383 0.00822029
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167 # C 0.00786504 0.153849 0.00483535 0.0255291
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168 # G 0.0251845 0.00502619 0.152836 0.00772086
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169 # T 0.00810112 0.0254057 0.00752835 0.267903
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170
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171 # score matrix (query letters = columns, reference letters = rows):
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172 # A C G T
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173 # A 94 -188 -74 -223
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174 # C -184 130 -185 -77
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175 # G -77 -181 130 -185
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176 # T -224 -77 -188 94
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177
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178 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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179
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180 # aligned letter pairs: 673098.9
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181 # deletes: 60509.124
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182 # inserts: 60931.728
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183 # delOpens: 33889.837
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184 # insOpens: 34772.3604
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185 # alignments: 1904
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186 # mean delete size: 1.78547
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187 # mean insert size: 1.7523
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188 # delOpenProb: 0.0455713
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189 # insOpenProb: 0.046758
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190 # delExtendProb: 0.439922
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191 # insExtendProb: 0.429323
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192
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193 # delExistCost: 259
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194 # insExistCost: 253
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195 # delExtendCost: 75
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196 # insExtendCost: 77
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197
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198 # substitution percent identity: 84.2455
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199
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200 # count matrix (query letters = columns, reference letters = rows):
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201 # A C G T
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202 # A 179372.81 4809.447538 17825.281852 5240.02635
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203 # C 5095.922788 103957.344 3086.126043 17363.08133
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204 # G 17133.73643 3204.862713 103068.961 5016.900182
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205 # T 5166.54604 17246.079885 4855.804638 180660.07
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206
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207 # probability matrix (query letters = columns, reference letters = rows):
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208 # A C G T
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209 # A 0.266486 0.00714519 0.0264822 0.00778488
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210 # C 0.00757079 0.154445 0.00458492 0.0257956
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211 # G 0.0254549 0.00476133 0.153125 0.00745339
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212 # T 0.00767571 0.0256218 0.00721406 0.268399
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213
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214 # score matrix (query letters = columns, reference letters = rows):
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215 # A C G T
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216 # A 94 -192 -73 -228
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217 # C -187 130 -190 -76
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218 # G -76 -186 130 -188
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219 # T -229 -76 -191 94
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220
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221 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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222
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223 # aligned letter pairs: 671420
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224 # deletes: 60847.457
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225 # inserts: 61216.623
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226 # delOpens: 34223.687
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227 # insOpens: 35105.5057
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228 # alignments: 1905
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229 # mean delete size: 1.77793
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230 # mean insert size: 1.74379
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231 # delOpenProb: 0.0460829
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232 # insOpenProb: 0.0472703
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233 # delExtendProb: 0.437549
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234 # insExtendProb: 0.426536
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235
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236 # delExistCost: 257
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237 # insExistCost: 251
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238 # delExtendCost: 75
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239 # insExtendCost: 78
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240
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241 # substitution percent identity: 84.3547
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242
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243 # count matrix (query letters = columns, reference letters = rows):
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244 # A C G T
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245 # A 179262.53 4683.13191 17831.725501 5066.33631
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246 # C 4991.393335 103798.9414 2969.9483841 17350.46316
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247 # G 17164.537784 3080.0882855 102891.659 4902.7599
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248 # T 5005.67514 17264.047033 4734.516842 180415.41
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249
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250 # probability matrix (query letters = columns, reference letters = rows):
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251 # A C G T
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252 # A 0.266993 0.00697504 0.0265585 0.00754578
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253 # C 0.00743416 0.154598 0.00442343 0.0258417
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254 # G 0.0255648 0.00458747 0.153246 0.00730215
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255 # T 0.00745543 0.025713 0.00705157 0.26871
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256
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257 # score matrix (query letters = columns, reference letters = rows):
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258 # A C G T
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259 # A 94 -195 -73 -231
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260 # C -189 130 -193 -76
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261 # G -76 -189 131 -190
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262 # T -232 -76 -194 94
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263
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264 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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265
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266 # aligned letter pairs: 667385.9
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267 # deletes: 60863.037
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268 # inserts: 61068.724
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269 # delOpens: 34293.856
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270 # insOpens: 35128.4285
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271 # alignments: 1897
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272 # mean delete size: 1.77475
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273 # mean insert size: 1.73844
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274 # delOpenProb: 0.0464242
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275 # insOpenProb: 0.047554
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276 # delExtendProb: 0.436541
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277 # insExtendProb: 0.424772
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278
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279 # delExistCost: 256
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280 # insExistCost: 250
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281 # delExtendCost: 75
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282 # insExtendCost: 78
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283
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284 # substitution percent identity: 84.4482
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285
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286 # count matrix (query letters = columns, reference letters = rows):
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287 # A C G T
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288 # A 178271.09 4572.202785 17691.13197 4943.68897
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289 # C 4898.898701 103247.5099 2897.9008978 17271.5722
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290 # G 17034.463563 2999.2086819 102377.98 4810.85091
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291 # T 4878.05409 17171.526982 4621.916292 179704.11
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292
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293 # probability matrix (query letters = columns, reference letters = rows):
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294 # A C G T
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295 # A 0.267116 0.00685085 0.0265079 0.00740747
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296 # C 0.00734036 0.154703 0.00434213 0.0258792
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297 # G 0.0255239 0.00449392 0.1534 0.00720843
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298 # T 0.00730913 0.0257293 0.00692534 0.269263
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299
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300 # score matrix (query letters = columns, reference letters = rows):
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301 # A C G T
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302 # A 94 -196 -73 -233
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303 # C -190 131 -194 -76
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304 # G -76 -191 131 -191
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305 # T -233 -76 -195 94
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306
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307 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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308
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309 # aligned letter pairs: 666793.9
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310 # deletes: 61173.009
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311 # inserts: 61424.737
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312 # delOpens: 34485.443
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313 # insOpens: 35339.5034
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314 # alignments: 1894
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315 # mean delete size: 1.77388
|
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316 # mean insert size: 1.73813
|
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317 # delOpenProb: 0.0466957
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318 # insOpenProb: 0.0478522
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319 # delExtendProb: 0.436264
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320 # insExtendProb: 0.42467
|
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|
321
|
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322 # delExistCost: 256
|
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323 # insExistCost: 249
|
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324 # delExtendCost: 76
|
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325 # insExtendCost: 78
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326
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327 # substitution percent identity: 84.4957
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328
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329 # count matrix (query letters = columns, reference letters = rows):
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330 # A C G T
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331 # A 178068.02 4536.310792 17696.513353 4890.10953
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332 # C 4868.64896 103333.5423 2873.6084247 17235.19293
|
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333 # G 17046.992851 2960.6778678 102434.344 4775.391737
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334 # T 4821.6702 17094.342963 4580.523287 179565.01
|
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335
|
|
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336 # probability matrix (query letters = columns, reference letters = rows):
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337 # A C G T
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338 # A 0.267056 0.0068033 0.0265402 0.00733391
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339 # C 0.00730172 0.154974 0.00430967 0.0258484
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340 # G 0.0255661 0.00444026 0.153625 0.00716186
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341 # T 0.00723127 0.0256371 0.00686961 0.269301
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342
|
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343 # score matrix (query letters = columns, reference letters = rows):
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344 # A C G T
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345 # A 95 -197 -73 -233
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346 # C -190 131 -195 -76
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347 # G -76 -192 131 -192
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348 # T -234 -76 -196 94
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349
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350 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
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351
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352 # aligned letter pairs: 668372.5
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353 # deletes: 61372.74
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354 # inserts: 61752.015
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355 # delOpens: 34634.079
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356 # insOpens: 35602.1868
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357 # alignments: 1894
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358 # mean delete size: 1.77203
|
|
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359 # mean insert size: 1.7345
|
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360 # delOpenProb: 0.046771
|
|
|
361 # insOpenProb: 0.0480783
|
|
|
362 # delExtendProb: 0.435677
|
|
|
363 # insExtendProb: 0.423465
|
|
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364
|
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365 # delExistCost: 255
|
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366 # insExistCost: 248
|
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367 # delExtendCost: 76
|
|
|
368 # insExtendCost: 78
|
|
|
369
|
|
|
370 # substitution percent identity: 84.4884
|
|
|
371
|
|
|
372 # count matrix (query letters = columns, reference letters = rows):
|
|
|
373 # A C G T
|
|
|
374 # A 178606.63 4528.388304 17729.296579 4898.0761
|
|
|
375 # C 4885.271035 103599.7129 2872.5313126 17312.05326
|
|
|
376 # G 17066.490557 2960.3238425 102604.038 4769.454259
|
|
|
377 # T 4821.57531 17246.644431 4582.143026 179869.01
|
|
|
378
|
|
|
379 # probability matrix (query letters = columns, reference letters = rows):
|
|
|
380 # A C G T
|
|
|
381 # A 0.267235 0.00677546 0.0265269 0.00732859
|
|
|
382 # C 0.00730943 0.155008 0.00429793 0.0259026
|
|
|
383 # G 0.0255352 0.00442929 0.153518 0.00713615
|
|
|
384 # T 0.00721413 0.0258047 0.00685589 0.269123
|
|
|
385
|
|
|
386 # score matrix (query letters = columns, reference letters = rows):
|
|
|
387 # A C G T
|
|
|
388 # A 95 -197 -73 -233
|
|
|
389 # C -190 130 -195 -76
|
|
|
390 # G -76 -192 131 -192
|
|
|
391 # T -235 -76 -196 94
|
|
|
392
|
|
|
393 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
|
|
|
394
|
|
|
395 # aligned letter pairs: 665455.3
|
|
|
396 # deletes: 61135.865
|
|
|
397 # inserts: 61504.017
|
|
|
398 # delOpens: 34525.4
|
|
|
399 # insOpens: 35494.9299
|
|
|
400 # alignments: 1886
|
|
|
401 # mean delete size: 1.77075
|
|
|
402 # mean insert size: 1.73275
|
|
|
403 # delOpenProb: 0.0468228
|
|
|
404 # insOpenProb: 0.0481377
|
|
|
405 # delExtendProb: 0.435268
|
|
|
406 # insExtendProb: 0.422884
|
|
|
407
|
|
|
408 # delExistCost: 255
|
|
|
409 # insExistCost: 248
|
|
|
410 # delExtendCost: 76
|
|
|
411 # insExtendCost: 78
|
|
|
412
|
|
|
413 # substitution percent identity: 84.5159
|
|
|
414
|
|
|
415 # count matrix (query letters = columns, reference letters = rows):
|
|
|
416 # A C G T
|
|
|
417 # A 177989.73 4503.762429 17609.060952 4856.77481
|
|
|
418 # C 4849.472712 103109.4119 2852.8739936 17229.83623
|
|
|
419 # G 16964.556937 2940.9623514 102150.05 4736.10198
|
|
|
420 # T 4758.08398 17182.445961 4551.911074 179145.32
|
|
|
421
|
|
|
422 # probability matrix (query letters = columns, reference letters = rows):
|
|
|
423 # A C G T
|
|
|
424 # A 0.267481 0.0067682 0.0264627 0.0072987
|
|
|
425 # C 0.00728772 0.154951 0.00428726 0.0258928
|
|
|
426 # G 0.0254941 0.00441964 0.15351 0.00711735
|
|
|
427 # T 0.00715039 0.0258216 0.00684055 0.269217
|
|
|
428
|
|
|
429 # score matrix (query letters = columns, reference letters = rows):
|
|
|
430 # A C G T
|
|
|
431 # A 95 -197 -73 -234
|
|
|
432 # C -191 131 -196 -76
|
|
|
433 # G -76 -192 131 -192
|
|
|
434 # T -235 -76 -196 94
|
|
|
435
|
|
|
436 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
|
|
|
437
|
|
|
438 # aligned letter pairs: 667215.5
|
|
|
439 # deletes: 61476.418
|
|
|
440 # inserts: 61879.205
|
|
|
441 # delOpens: 34711.673
|
|
|
442 # insOpens: 35697.4767
|
|
|
443 # alignments: 1892
|
|
|
444 # mean delete size: 1.77106
|
|
|
445 # mean insert size: 1.73343
|
|
|
446 # delOpenProb: 0.0469383
|
|
|
447 # insOpenProb: 0.0482713
|
|
|
448 # delExtendProb: 0.435366
|
|
|
449 # insExtendProb: 0.42311
|
|
|
450
|
|
|
451 # delExistCost: 255
|
|
|
452 # insExistCost: 248
|
|
|
453 # delExtendCost: 76
|
|
|
454 # insExtendCost: 78
|
|
|
455
|
|
|
456 # substitution percent identity: 84.5201
|
|
|
457
|
|
|
458 # count matrix (query letters = columns, reference letters = rows):
|
|
|
459 # A C G T
|
|
|
460 # A 178292.03 4511.809138 17670.490922 4851.35066
|
|
|
461 # C 4842.564675 103502.2645 2843.789638 17283.582
|
|
|
462 # G 17031.671871 2952.5211926 102467.621 4751.735375
|
|
|
463 # T 4777.82579 17198.105981 4567.418934 179660.81
|
|
|
464
|
|
|
465 # probability matrix (query letters = columns, reference letters = rows):
|
|
|
466 # A C G T
|
|
|
467 # A 0.267222 0.00676225 0.0264843 0.00727115
|
|
|
468 # C 0.00725798 0.155128 0.00426224 0.0259044
|
|
|
469 # G 0.0255269 0.0044252 0.153577 0.00712185
|
|
|
470 # T 0.00716095 0.0257763 0.00684559 0.269274
|
|
|
471
|
|
|
472 # score matrix (query letters = columns, reference letters = rows):
|
|
|
473 # A C G T
|
|
|
474 # A 95 -197 -73 -234
|
|
|
475 # C -191 130 -196 -76
|
|
|
476 # G -76 -192 131 -192
|
|
|
477 # T -235 -76 -196 94
|
|
|
478
|
|
|
479 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
|
|
|
480
|
|
|
481 # aligned letter pairs: 665601.7
|
|
|
482 # deletes: 61110.454
|
|
|
483 # inserts: 61539.036
|
|
|
484 # delOpens: 34519.822
|
|
|
485 # insOpens: 35512.5895
|
|
|
486 # alignments: 1890
|
|
|
487 # mean delete size: 1.7703
|
|
|
488 # mean insert size: 1.73288
|
|
|
489 # delOpenProb: 0.0468049
|
|
|
490 # insOpenProb: 0.048151
|
|
|
491 # delExtendProb: 0.435124
|
|
|
492 # insExtendProb: 0.422926
|
|
|
493
|
|
|
494 # delExistCost: 255
|
|
|
495 # insExistCost: 248
|
|
|
496 # delExtendCost: 76
|
|
|
497 # insExtendCost: 78
|
|
|
498
|
|
|
499 # substitution percent identity: 84.5287
|
|
|
500
|
|
|
501 # count matrix (query letters = columns, reference letters = rows):
|
|
|
502 # A C G T
|
|
|
503 # A 178045.53 4503.713821 17604.443539 4828.70278
|
|
|
504 # C 4826.541757 103105.4814 2834.2139601 17243.04778
|
|
|
505 # G 16969.584056 2940.3365692 102106.499 4732.997971
|
|
|
506 # T 4762.93067 17171.077328 4556.037659 179345.31
|
|
|
507
|
|
|
508 # probability matrix (query letters = columns, reference letters = rows):
|
|
|
509 # A C G T
|
|
|
510 # A 0.267506 0.00676664 0.0264499 0.00725492
|
|
|
511 # C 0.00725167 0.154912 0.00425828 0.0259069
|
|
|
512 # G 0.0254961 0.00441773 0.153411 0.00711113
|
|
|
513 # T 0.0071561 0.0257988 0.00684525 0.269459
|
|
|
514
|
|
|
515 # score matrix (query letters = columns, reference letters = rows):
|
|
|
516 # A C G T
|
|
|
517 # A 95 -197 -73 -235
|
|
|
518 # C -191 131 -196 -76
|
|
|
519 # G -76 -192 131 -193
|
|
|
520 # T -235 -76 -196 94
|
|
|
521
|
|
|
522 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
|
|
|
523
|
|
|
524 # aligned letter pairs: 667867
|
|
|
525 # deletes: 61545.493
|
|
|
526 # inserts: 61947.098
|
|
|
527 # delOpens: 34751.308
|
|
|
528 # insOpens: 35738.0794
|
|
|
529 # alignments: 1897
|
|
|
530 # mean delete size: 1.77103
|
|
|
531 # mean insert size: 1.73336
|
|
|
532 # delOpenProb: 0.0469451
|
|
|
533 # insOpenProb: 0.0482781
|
|
|
534 # delExtendProb: 0.435356
|
|
|
535 # insExtendProb: 0.423087
|
|
|
536
|
|
|
537 # delExistCost: 255
|
|
|
538 # insExistCost: 248
|
|
|
539 # delExtendCost: 76
|
|
|
540 # insExtendCost: 78
|
|
|
541
|
|
|
542 # substitution percent identity: 84.5213
|
|
|
543
|
|
|
544 # count matrix (query letters = columns, reference letters = rows):
|
|
|
545 # A C G T
|
|
|
546 # A 178479.93 4519.435975 17696.250205 4834.79514
|
|
|
547 # C 4852.489573 103558.824 2845.7910385 17318.78409
|
|
|
548 # G 17063.13382 2956.1887816 102498.451 4733.342314
|
|
|
549 # T 4784.65867 17197.72566 4572.985914 179943.91
|
|
|
550
|
|
|
551 # probability matrix (query letters = columns, reference letters = rows):
|
|
|
552 # A C G T
|
|
|
553 # A 0.267243 0.00676707 0.0264971 0.00723927
|
|
|
554 # C 0.00726576 0.155061 0.00426108 0.0259319
|
|
|
555 # G 0.0255491 0.00442638 0.153474 0.00708736
|
|
|
556 # T 0.0071642 0.0257506 0.00684726 0.269435
|
|
|
557
|
|
|
558 # score matrix (query letters = columns, reference letters = rows):
|
|
|
559 # A C G T
|
|
|
560 # A 95 -197 -73 -235
|
|
|
561 # C -191 131 -196 -76
|
|
|
562 # G -75 -192 131 -193
|
|
|
563 # T -235 -76 -196 94
|
|
|
564
|
|
|
565 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
|
|
|
566
|
|
|
567 # aligned letter pairs: 667848.4
|
|
|
568 # deletes: 61567.479
|
|
|
569 # inserts: 62006.567
|
|
|
570 # delOpens: 34755.709
|
|
|
571 # insOpens: 35753.0592
|
|
|
572 # alignments: 1895
|
|
|
573 # mean delete size: 1.77143
|
|
|
574 # mean insert size: 1.7343
|
|
|
575 # delOpenProb: 0.0469511
|
|
|
576 # insOpenProb: 0.0482984
|
|
|
577 # delExtendProb: 0.435486
|
|
|
578 # insExtendProb: 0.423399
|
|
|
579
|
|
|
580 # delExistCost: 255
|
|
|
581 # insExistCost: 248
|
|
|
582 # delExtendCost: 76
|
|
|
583 # insExtendCost: 78
|
|
|
584
|
|
|
585 # substitution percent identity: 84.5102
|
|
|
586
|
|
|
587 # count matrix (query letters = columns, reference letters = rows):
|
|
|
588 # A C G T
|
|
|
589 # A 178498.03 4524.992357 17712.490447 4841.2626
|
|
|
590 # C 4848.343909 103538.1147 2846.8428447 17309.54422
|
|
|
591 # G 17107.155533 2955.1213614 102468.661 4729.73675
|
|
|
592 # T 4786.48956 17208.555606 4576.294121 179887.61
|
|
|
593
|
|
|
594 # probability matrix (query letters = columns, reference letters = rows):
|
|
|
595 # A C G T
|
|
|
596 # A 0.267277 0.00677557 0.0265221 0.00724914
|
|
|
597 # C 0.00725975 0.155034 0.00426277 0.0259187
|
|
|
598 # G 0.0256157 0.0044249 0.153433 0.00708215
|
|
|
599 # T 0.00716713 0.0257675 0.00685239 0.269358
|
|
|
600
|
|
|
601 # score matrix (query letters = columns, reference letters = rows):
|
|
|
602 # A C G T
|
|
|
603 # A 95 -197 -72 -234
|
|
|
604 # C -191 131 -196 -76
|
|
|
605 # G -75 -192 131 -193
|
|
|
606 # T -235 -76 -196 94
|
|
|
607
|
|
|
608 # lastal -j7 -S1 -P8 -p- ps_tail_near /tmp/tmpLzO6pN
|
|
|
609
|
|
|
610 # aligned letter pairs: 667329.4
|
|
|
611 # deletes: 61526.981
|
|
|
612 # inserts: 61935.551
|
|
|
613 # delOpens: 34736.121
|
|
|
614 # insOpens: 35715.1049
|
|
|
615 # alignments: 1891
|
|
|
616 # mean delete size: 1.77127
|
|
|
617 # mean insert size: 1.73416
|
|
|
618 # delOpenProb: 0.0469615
|
|
|
619 # insOpenProb: 0.048285
|
|
|
620 # delExtendProb: 0.435433
|
|
|
621 # insExtendProb: 0.42335
|
|
|
622
|
|
|
623 # delExistCost: 255
|
|
|
624 # insExistCost: 248
|
|
|
625 # delExtendCost: 76
|
|
|
626 # insExtendCost: 78
|
|
|
627
|
|
|
628 # substitution percent identity: 84.5031
|
|
|
629
|
|
|
630 # count matrix (query letters = columns, reference letters = rows):
|
|
|
631 # A C G T
|
|
|
632 # A 178304.73 4517.257925 17741.252681 4858.77123
|
|
|
633 # C 4843.594396 103456.2463 2845.5696656 17298.79994
|
|
|
634 # G 17092.716475 2952.0734537 102484.764 4727.692877
|
|
|
635 # T 4781.83456 17183.48844 4570.956339 179662.41
|
|
|
636
|
|
|
637 # probability matrix (query letters = columns, reference letters = rows):
|
|
|
638 # A C G T
|
|
|
639 # A 0.267194 0.00676923 0.0265857 0.007281
|
|
|
640 # C 0.00725826 0.155032 0.00426416 0.0259227
|
|
|
641 # G 0.0256139 0.00442376 0.153576 0.00708457
|
|
|
642 # T 0.00716571 0.0257499 0.0068497 0.269229
|
|
|
643
|
|
|
644 # score matrix (query letters = columns, reference letters = rows):
|
|
|
645 # A C G T
|
|
|
646 # A 95 -197 -72 -234
|
|
|
647 # C -191 131 -196 -76
|
|
|
648 # G -75 -192 131 -193
|
|
|
649 # T -235 -76 -196 94
|
|
|
650
|
|
|
651 #last -a 13
|
|
|
652 #last -A 12
|
|
|
653 #last -b 4
|
|
|
654 #last -B 4
|
|
|
655 #last -S 1
|
|
|
656 # score matrix (query letters = columns, reference letters = rows):
|
|
|
657 A C G T
|
|
|
658 A 5 -10 -4 -12
|
|
|
659 C -10 7 -10 -4
|
|
|
660 G -4 -10 7 -10
|
|
|
661 T -12 -4 -10 5
|
