Table 3 Summary of the within-cluster Euclidean distance and the center-to-center Euclidean distance for 18 protein fragment clusters found by our alphabet design pipeline

1

116.6

37.2

252.3

300.4

330.1

242.8

181.7

182.1

317.6

327.7

415.4

266.3

329.0

181.7

242.5

262.2

273.6

253.4

193.2

0

2

238.7

38.5

315.8

226.6

272.7

197.4

243.3

227.2

285.3

270.5

346.1

283.9

285.4

261.3

189.5

182.3

215.0

296.0

0

3

264.7

29.8

219.7

279.8

193.6

220.6

190.4

284.1

251.1

292.9

413.2

195.1

237.6

181.4

324.4

234.1

285.9

0

4

319.3

41.5

297.8

297.0

270.7

285.5

311.5

288.6

286.9

317.1

352.2

302.9

184.3

250.7

256.2

193.3

0

5

250.4

39.7

248.6

268.9

190.2

238.1

302.2

280.1

258.5

287.2

406.6

267.2

258.8

192.8

229.0

0

6

257.5

28.0

220.4

174.2

242.3

180.4

262.8

266.2

264.4

229.1

310.3

322.3

270.9

308.6

0

7

72.2

20.4

220.8

356.7

289.2

297.5

266.1

244.8

307.2

361.1

478.3

248.9

316.8

0

8

282.2

31.0

275.3

214.2

186.1

218.9

259.1

335.6

258.2

253.8

286.9

273.9

0

9

320.9

27.9

275.8

287.6

250.7

244.5

222.6

292.2

286.7

307.3

354.3

0

10

148.8

26.1

406.3

243.1

334.4

286.3

333.5

361.8

293.2

240.8

0

11

97.1

43.4

290.4

169.5

214.8

178.9

248.7

238.3

270.4

0

12

272.0

32.7

259.7

226.6

200.7

218.7

269.1

325.6

0

13

133.6

33.2

291.2

309.3

334.3

267.6

230.5

0

14

272.8

31.4

255.5

206.2

258.7

145.3

0

15

106.2

32.3

241.1

76.8

162.1

0

16

109.0

39.1

221.8

172.6

0

17

33.2

23.2

272.9

0

18

146.2

38.2

0