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 |