/PAMLdat/jones-dcmut.dat
http://github.com/sbotond/phylosim · Unknown · 50 lines · 38 code · 12 blank · 0 comment · 0 complexity · 6ce233af412c46f1537047c71282f259 MD5 · raw file
- 0.531678
- 0.557967 0.451095
- 0.827445 0.154899 5.549530
- 0.574478 1.019843 0.313311 0.105625
- 0.556725 3.021995 0.768834 0.521646 0.091304
- 1.066681 0.318483 0.578115 7.766557 0.053907 3.417706
- 1.740159 1.359652 0.773313 1.272434 0.546389 0.231294 1.115632
- 0.219970 3.210671 4.025778 1.032342 0.724998 5.684080 0.243768 0.201696
- 0.361684 0.239195 0.491003 0.115968 0.150559 0.078270 0.111773 0.053769 0.181788
- 0.310007 0.372261 0.137289 0.061486 0.164593 0.709004 0.097485 0.069492 0.540571 2.335139
- 0.369437 6.529255 2.529517 0.282466 0.049009 2.966732 1.731684 0.269840 0.525096 0.202562 0.146481
- 0.469395 0.431045 0.330720 0.190001 0.409202 0.456901 0.175084 0.130379 0.329660 4.831666 3.856906 0.624581
- 0.138293 0.065314 0.073481 0.032522 0.678335 0.045683 0.043829 0.050212 0.453428 0.777090 2.500294 0.024521 0.436181
- 1.959599 0.710489 0.121804 0.127164 0.123653 1.608126 0.191994 0.208081 1.141961 0.098580 1.060504 0.216345 0.164215 0.148483
- 3.887095 1.001551 5.057964 0.589268 2.155331 0.548807 0.312449 1.874296 0.743458 0.405119 0.592511 0.474478 0.285564 0.943971 2.788406
- 4.582565 0.650282 2.351311 0.425159 0.469823 0.523825 0.331584 0.316862 0.477355 2.553806 0.272514 0.965641 2.114728 0.138904 1.176961 4.777647
- 0.084329 1.257961 0.027700 0.057466 1.104181 0.172206 0.114381 0.544180 0.128193 0.134510 0.530324 0.089134 0.201334 0.537922 0.069965 0.310927 0.080556
- 0.139492 0.235601 0.700693 0.453952 2.114852 0.254745 0.063452 0.052500 5.848400 0.303445 0.241094 0.087904 0.189870 5.484236 0.113850 0.628608 0.201094 0.747889
- 2.924161 0.171995 0.164525 0.315261 0.621323 0.179771 0.465271 0.470140 0.121827 9.533943 1.761439 0.124066 3.038533 0.593478 0.211561 0.408532 1.143980 0.239697 0.165473
-
-
- 0.076862 0.051057 0.042546 0.051269 0.020279 0.041061 0.061820 0.074714 0.022983 0.052569 0.091111 0.059498 0.023414 0.040530 0.050532 0.068225 0.058518 0.014336 0.032303 0.066374
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- A R N D C Q E G H I L K M F P S T W Y V
- Ala Arg Asn Asp Cys Gln Glu Gly His Ile Leu Lys Met Phe Pro Ser Thr Trp Tyr Val
-
-
- JTT rate matrix prepared using the DCMut method*
- ------------------------------------------------
-
- The first part above indicates the symmetric 'exchangeability' parameters s_ij,
- where s_ij = s_ji.
- The second part gives the amino acid equilibrium frequencies pi_i.
- The net replacement rate from i to j is q_ij = pi_j*s_ij.
-
- This model is usually scaled so that the mean rate of change at
- equilibrium, Sum_i Sum_j!=i pi_i*q_ij, equals 1. You should check this
- scaling before using the matrix above. The PAML package will perform
- this scaling.
-
- //
-
- *Prepared by Carolin Kosiol and Nick Goldman, December 2003.
-
- See the following paper for more details:
- Kosiol, C., and Goldman, N. 2005. Different versions of the Dayhoff rate matrix.
- Molecular Biology and Evolution 22:193-199.
-
- See also http://www.ebi.ac.uk/goldman/dayhoff