Table 1 Duplicate sequence percentages in HomFam protein families
From: Instability in progressive multiple sequence alignment algorithms
Protein family | Total seqs | Unique seqs | % Dup |
|---|---|---|---|
aadh | 3119 | 2348 | 24.72 |
aat | 25,090 | 19,879 | 20.77 |
Acetyltransf | 46,279 | 31,943 | 30.98 |
ace | 3983 | 3787 | 4.92 |
adh | 21,326 | 15,452 | 27.54 |
aldosered | 13,270 | 10,787 | 18.71 |
Ald_Xan_dh_2 | 2583 | 2037 | 21.14 |
annexin | 3133 | 2288 | 26.97 |
asp | 3249 | 2979 | 8.31 |
az | 1057 | 892 | 15.61 |
biotin_lipoyl | 11,826 | 7332 | 38.00 |
blmb | 17,194 | 13,102 | 23.80 |
blm | 9097 | 7145 | 21.46 |
bowman | 494 | 218 | 55.87 |
cah | 1374 | 1197 | 12.88 |
ChtBD | 769 | 447 | 41.87 |
cryst | 1153 | 909 | 21.16 |
cyclo | 6282 | 4967 | 20.93 |
cys | 4303 | 3910 | 9.13 |
cyt3 | 379 | 347 | 8.44 |
cytb | 3200 | 2622 | 18.06 |
DEATH | 1176 | 874 | 25.68 |
DMRL_synthase | 2094 | 1423 | 32.04 |
egf | 7762 | 5405 | 30.36 |
flav | 4606 | 3103 | 32.63 |
GEL | 2190 | 1583 | 27.72 |
ghf10 | 1497 | 1393 | 6.95 |
ghf11 | 516 | 461 | 10.66 |
ghf13 | 12,597 | 9870 | 21.65 |
ghf1 | 4350 | 3471 | 20.21 |
ghf22 | 748 | 608 | 18.72 |
ghf5 | 2711 | 2355 | 13.13 |
glob | 3942 | 2828 | 28.26 |
gluts | 10,085 | 7841 | 22.25 |
gpdh | 7683 | 4993 | 35.01 |
hip | 162 | 115 | 29.01 |
hla | 13,460 | 9148 | 32.03 |
HLH | 6776 | 3417 | 49.57 |
HMG_box | 4774 | 2988 | 37.41 |
hom | 12,029 | 6044 | 49.75 |
hormone_rec | 3504 | 2896 | 17.35 |
hpr | 3344 | 1878 | 43.84 |
hr | 3702 | 1985 | 46.38 |
icd | 5673 | 4505 | 20.59 |
il8 | 1062 | 799 | 24.76 |
ins | 787 | 524 | 33.42 |
int | 7567 | 6185 | 18.26 |
KAS | 2064 | 1490 | 27.81 |
kringle | 1082 | 821 | 24.12 |
kunitz | 2256 | 1753 | 22.30 |
ldh | 7353 | 3094 | 57.92 |
LIM | 6423 | 3729 | 41.94 |
ltn | 1056 | 909 | 13.92 |
lyase_1 | 7627 | 5611 | 26.43 |
mmp | 1421 | 1136 | 20.06 |
mofe | 2561 | 2326 | 9.18 |
msb | 4876 | 4094 | 16.04 |
myb_DNA-binding | 10,393 | 7124 | 31.45 |
OTCace | 4790 | 3234 | 32.48 |
oxidored_q6 | 3343 | 1974 | 40.95 |
p450 | 21,001 | 19,700 | 6.19 |
PDZ | 14,944 | 9552 | 36.08 |
peroxidase | 4509 | 3589 | 20.40 |
phc | 2945 | 1961 | 33.41 |
phoslip | 928 | 803 | 13.47 |
profilin | 682 | 579 | 15.10 |
proteasome | 5715 | 4549 | 20.40 |
Rhodanese | 14,043 | 10,011 | 28.71 |
rhv | 17,970 | 9151 | 49.08 |
ricin | 740 | 548 | 25.94 |
rnasemam | 492 | 438 | 10.98 |
rrm | 27,590 | 18,692 | 32.25 |
rub | 1430 | 975 | 31.82 |
rvp | 93,675 | 64,987 | 30.62 |
scorptoxin | 355 | 311 | 12.39 |
sdr | 50,144 | 40,212 | 19.81 |
seatoxin | 88 | 63 | 28.41 |
serpin | 3136 | 2957 | 5.71 |
slectin | 927 | 749 | 19.20 |
sodcu | 2031 | 1586 | 21.91 |
sodfe | 4447 | 2728 | 38.65 |
Stap_Strp_toxin | 634 | 174 | 72.56 |
sti | 608 | 536 | 11.84 |
subt | 7506 | 6469 | 13.81 |
Sulfotransfer | 2484 | 2269 | 8.65 |
tgfb | 1598 | 1022 | 36.04 |
tim | 3894 | 2909 | 25.30 |
tms | 2113 | 1518 | 28.16 |
TNF | 551 | 417 | 24.32 |
toxin | 488 | 450 | 7.79 |
trfl | 830 | 742 | 10.60 |
tRNA-synt_2b | 11,288 | 7670 | 32.05 |
uce | 4545 | 3744 | 17.62 |
zf-CCHH | 88,330 | 45,901 | 48.03 |