/test-data/fastqc_data.txt

https://bitbucket.org/cistrome/cistrome-harvard/ · Plain Text · 558 lines · 558 code · 0 blank · 0 comment · 0 complexity · f1e0418e1bdffc4da92c6f06f4424d60 MD5 · raw file

  1. ##FastQC 0.9.1
  2. >>Basic Statistics pass
  3. #Measure Value
  4. Filename 1000gsample.fastq
  5. File type Conventional base calls
  6. Encoding Sanger / Illumina 1.9
  7. Total Sequences 5000
  8. Sequence length 54
  9. %GC 43
  10. >>END_MODULE
  11. >>Per base sequence quality warn
  12. #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile
  13. 1 28.9946 31.0 27.0 33.0 22.0 34.0
  14. 2 28.486 30.0 26.0 32.0 21.0 33.0
  15. 3 28.5272 30.0 26.0 32.0 21.0 34.0
  16. 4 28.6252 30.0 26.0 32.0 22.0 33.0
  17. 5 28.4804 30.0 26.0 32.0 21.0 33.0
  18. 6 28.5128 30.0 26.0 32.0 22.0 33.0
  19. 7 28.4102 30.0 26.0 32.0 21.0 33.0
  20. 8 28.4674 30.0 26.0 32.0 22.0 33.0
  21. 9 28.182 30.0 26.0 32.0 21.0 33.0
  22. 10 28.0908 30.0 26.0 32.0 21.0 33.0
  23. 11 28.1876 30.0 26.0 32.0 21.0 33.0
  24. 12 28.1742 30.0 26.0 32.0 21.0 33.0
  25. 13 27.923 30.0 25.0 32.0 20.0 33.0
  26. 14 27.8984 29.0 25.0 32.0 21.0 33.0
  27. 15 27.6112 29.0 25.0 32.0 20.0 33.0
  28. 16 27.6638 29.0 25.0 32.0 20.0 33.0
  29. 17 27.5734 29.0 25.0 32.0 20.0 33.0
  30. 18 27.6348 29.0 25.0 32.0 20.0 33.0
  31. 19 27.6526 29.0 25.0 32.0 20.0 33.0
  32. 20 27.2716 29.0 24.0 32.0 19.0 33.0
  33. 21 27.2642 29.0 25.0 31.0 19.0 33.0
  34. 22 26.881 28.0 24.0 31.0 19.0 33.0
  35. 23 26.8124 28.0 24.0 31.0 19.0 33.0
  36. 24 26.8204 28.0 24.0 31.0 19.0 33.0
  37. 25 26.6606 28.0 24.0 31.0 18.0 33.0
  38. 26 26.3806 28.0 23.0 31.0 18.0 33.0
  39. 27 25.947 28.0 23.0 31.0 17.0 33.0
  40. 28 25.7446 27.0 22.0 31.0 16.0 33.0
  41. 29 25.6856 27.0 22.0 31.0 16.0 33.0
  42. 30 25.5228 27.0 22.0 31.0 16.0 33.0
  43. 31 25.354 27.0 22.0 30.0 16.0 32.0
  44. 32 25.1656 27.0 22.0 30.0 16.0 32.0
  45. 33 25.0164 26.0 21.0 30.0 15.0 32.0
  46. 34 24.75 26.0 21.0 30.0 15.0 32.0
  47. 35 24.3926 26.0 21.0 30.0 15.0 32.0
  48. 36 24.1122 25.0 20.0 30.0 14.0 32.0
  49. 37 23.8612 25.0 20.0 29.0 13.0 32.0
  50. 38 23.7544 25.0 20.0 29.0 13.0 32.0
  51. 39 23.485 25.0 19.0 29.0 13.0 32.0
  52. 40 23.1984 24.0 19.0 29.0 13.0 32.0
  53. 41 23.0976 24.0 19.0 29.0 13.0 32.0
  54. 42 22.9212 24.0 19.0 28.0 13.0 31.0
  55. 43 22.5172 24.0 18.0 28.0 12.0 31.0
  56. 44 22.3234 23.0 18.0 28.0 12.0 31.0
  57. 45 22.1372 23.0 18.0 28.0 11.0 31.0
  58. 46 22.2166 23.0 18.0 28.0 11.0 31.0
  59. 47 22.075 23.0 18.0 28.0 11.0 31.0
  60. 48 21.4592 22.0 17.0 27.0 11.0 31.0
  61. 49 21.0954 22.0 16.0 27.0 10.0 30.0
  62. 50 20.9356 22.0 16.0 27.0 10.0 30.0
  63. 51 20.6152 21.0 15.0 27.0 9.0 30.0
  64. 52 20.6588 21.0 16.0 27.0 9.0 30.0
  65. 53 19.5852 20.0 14.0 25.0 9.0 29.0
  66. 54 19.9424 21.0 14.0 26.0 7.0 30.0
  67. >>END_MODULE
  68. >>Per sequence quality scores warn
  69. #Quality Count
  70. 8 4.0
  71. 9 4.0
  72. 10 2.0
  73. 11 2.0
  74. 12 4.0
  75. 13 6.0
  76. 14 4.0
  77. 15 11.0
  78. 16 20.0
  79. 17 50.0
  80. 18 98.0
  81. 19 149.0
  82. 20 210.0
  83. 21 275.0
  84. 22 367.0
  85. 23 425.0
  86. 24 518.0
  87. 25 540.0
  88. 26 539.0
  89. 27 532.0
  90. 28 468.0
  91. 29 360.0
  92. 30 234.0
  93. 31 122.0
  94. 32 51.0
  95. 33 5.0
  96. >>END_MODULE
  97. >>Per base sequence content pass
  98. #Base G A T C
  99. 1 1075 1632 1296 997
  100. 2 1202 1586 1327 885
  101. 3 1079 1443 1471 1007
  102. 4 1079 1414 1445 1062
  103. 5 1058 1486 1416 1040
  104. 6 1119 1462 1286 1133
  105. 7 1067 1516 1412 1005
  106. 8 1079 1453 1397 1071
  107. 9 1015 1424 1429 1132
  108. 10 1060 1542 1328 1070
  109. 11 1057 1432 1364 1147
  110. 12 1066 1444 1450 1040
  111. 13 1018 1461 1447 1074
  112. 14 1001 1460 1461 1078
  113. 15 1010 1461 1419 1110
  114. 16 1017 1469 1465 1049
  115. 17 1030 1457 1425 1088
  116. 18 1030 1396 1470 1104
  117. 19 1083 1423 1429 1065
  118. 20 1000 1462 1448 1090
  119. 21 1086 1425 1409 1080
  120. 22 1026 1544 1365 1065
  121. 23 1036 1445 1486 1033
  122. 24 1056 1431 1379 1134
  123. 25 1055 1453 1458 1034
  124. 26 1109 1419 1406 1064
  125. 27 1067 1426 1438 1068
  126. 28 967 1527 1373 1133
  127. 29 1045 1456 1452 1046
  128. 30 1055 1470 1372 1103
  129. 31 1042 1402 1433 1123
  130. 32 992 1418 1437 1151
  131. 33 1104 1431 1363 1101
  132. 34 1065 1464 1363 1107
  133. 35 1054 1471 1411 1063
  134. 36 1070 1433 1440 1056
  135. 37 1044 1471 1426 1057
  136. 38 1093 1451 1403 1052
  137. 39 1096 1412 1352 1138
  138. 40 1066 1425 1391 1118
  139. 41 1083 1405 1380 1129
  140. 42 1114 1401 1385 1097
  141. 43 1062 1421 1391 1125
  142. 44 1070 1449 1377 1103
  143. 45 1093 1464 1337 1106
  144. 46 1063 1377 1387 1173
  145. 47 1081 1413 1402 1102
  146. 48 1064 1422 1320 1194
  147. 49 1052 1452 1359 1136
  148. 50 1091 1407 1340 1160
  149. 51 1051 1386 1400 1161
  150. 52 1091 1507 1297 1104
  151. 53 1058 1416 1402 1123
  152. 54 1072 1345 1339 1221
  153. >>END_MODULE
  154. >>Per base GC content pass
  155. #Base %GC
  156. 1 41.44
  157. 2 41.74
  158. 3 41.72
  159. 4 42.82
  160. 5 41.959999999999994
  161. 6 45.04
  162. 7 41.44
  163. 8 43.0
  164. 9 42.94
  165. 10 42.6
  166. 11 44.080000000000005
  167. 12 42.120000000000005
  168. 13 41.839999999999996
  169. 14 41.58
  170. 15 42.4
  171. 16 41.32
  172. 17 42.36
  173. 18 42.68
  174. 19 42.96
  175. 20 41.8
  176. 21 43.32
  177. 22 41.82
  178. 23 41.38
  179. 24 43.8
  180. 25 41.78
  181. 26 43.47739095638256
  182. 27 42.70854170834167
  183. 28 42.0
  184. 29 41.82836567313463
  185. 30 43.16
  186. 31 43.3
  187. 32 42.87715086034414
  188. 33 44.10882176435287
  189. 34 43.44868973794759
  190. 35 42.34846969393879
  191. 36 42.528505701140226
  192. 37 42.03681472589035
  193. 38 42.90858171634327
  194. 39 44.697879151660665
  195. 40 43.68
  196. 41 44.266559935961574
  197. 42 44.24654792875725
  198. 43 43.74874974994999
  199. 44 43.468693738747746
  200. 45 43.980000000000004
  201. 46 44.72
  202. 47 43.677470988395356
  203. 48 45.16
  204. 49 43.76875375075015
  205. 50 45.038015206082434
  206. 51 44.25770308123249
  207. 52 43.908781756351274
  208. 53 43.628725745149026
  209. 54 46.071930882057465
  210. >>END_MODULE
  211. >>Per sequence GC content warn
  212. #GC Content Count
  213. 0 3.0
  214. 1 5.0
  215. 2 7.0
  216. 3 7.0
  217. 4 7.0
  218. 5 5.0
  219. 6 2.0
  220. 7 1.0
  221. 8 1.5
  222. 9 2.0
  223. 10 1.5
  224. 11 1.0
  225. 12 2.5
  226. 13 4.0
  227. 14 4.0
  228. 15 4.0
  229. 16 5.0
  230. 17 6.0
  231. 18 11.0
  232. 19 19.5
  233. 20 23.0
  234. 21 37.5
  235. 22 52.0
  236. 23 61.0
  237. 24 70.0
  238. 25 79.0
  239. 26 88.0
  240. 27 117.5
  241. 28 147.0
  242. 29 159.5
  243. 30 172.0
  244. 31 203.0
  245. 32 243.0
  246. 33 252.0
  247. 34 290.0
  248. 35 328.0
  249. 36 330.0
  250. 37 332.0
  251. 38 332.5
  252. 39 333.0
  253. 40 342.0
  254. 41 351.0
  255. 42 343.5
  256. 43 336.0
  257. 44 318.5
  258. 45 279.5
  259. 46 258.0
  260. 47 254.5
  261. 48 251.0
  262. 49 234.5
  263. 50 218.0
  264. 51 209.5
  265. 52 201.0
  266. 53 198.5
  267. 54 196.0
  268. 55 177.0
  269. 56 162.5
  270. 57 167.0
  271. 58 147.0
  272. 59 127.0
  273. 60 106.5
  274. 61 86.0
  275. 62 85.0
  276. 63 84.0
  277. 64 61.5
  278. 65 39.0
  279. 66 42.5
  280. 67 46.0
  281. 68 34.0
  282. 69 17.0
  283. 70 12.0
  284. 71 14.0
  285. 72 16.0
  286. 73 12.5
  287. 74 9.0
  288. 75 6.5
  289. 76 4.0
  290. 77 4.5
  291. 78 5.0
  292. 79 5.0
  293. 80 5.0
  294. 81 3.0
  295. 82 1.0
  296. 83 1.0
  297. 84 1.0
  298. 85 1.0
  299. 86 1.0
  300. 87 1.0
  301. 88 1.0
  302. 89 1.0
  303. 90 2.0
  304. 91 3.0
  305. 92 2.5
  306. 93 2.0
  307. 94 2.0
  308. 95 3.0
  309. 96 4.0
  310. 97 5.0
  311. 98 6.0
  312. 99 3.5
  313. 100 1.0
  314. >>END_MODULE
  315. >>Per base N content pass
  316. #Base N-Count
  317. 1 0.0
  318. 2 0.0
  319. 3 0.0
  320. 4 0.0
  321. 5 0.0
  322. 6 0.0
  323. 7 0.0
  324. 8 0.0
  325. 9 0.0
  326. 10 0.0
  327. 11 0.0
  328. 12 0.0
  329. 13 0.0
  330. 14 0.0
  331. 15 0.0
  332. 16 0.0
  333. 17 0.0
  334. 18 0.0
  335. 19 0.0
  336. 20 0.0
  337. 21 0.0
  338. 22 0.0
  339. 23 0.0
  340. 24 0.0
  341. 25 0.0
  342. 26 0.04
  343. 27 0.02
  344. 28 0.0
  345. 29 0.02
  346. 30 0.0
  347. 31 0.0
  348. 32 0.04
  349. 33 0.02
  350. 34 0.02
  351. 35 0.02
  352. 36 0.02
  353. 37 0.04
  354. 38 0.02
  355. 39 0.04
  356. 40 0.0
  357. 41 0.06
  358. 42 0.06
  359. 43 0.02
  360. 44 0.02
  361. 45 0.0
  362. 46 0.0
  363. 47 0.04
  364. 48 0.0
  365. 49 0.02
  366. 50 0.04
  367. 51 0.04
  368. 52 0.02
  369. 53 0.02
  370. 54 0.45999999999999996
  371. >>END_MODULE
  372. >>Sequence Length Distribution pass
  373. #Length Count
  374. 54 5000.0
  375. >>END_MODULE
  376. >>Sequence Duplication Levels pass
  377. #Total Duplicate Percentage 0.66
  378. #Duplication Level Relative count
  379. 1 100.0
  380. 2 0.08053150795248641
  381. 3 0.040265753976243206
  382. 4 0.0
  383. 5 0.020132876988121603
  384. 6 0.0
  385. 7 0.040265753976243206
  386. 8 0.0
  387. 9 0.0
  388. 10++ 0.0
  389. >>END_MODULE
  390. >>Overrepresented sequences warn
  391. #Sequence Count Percentage Possible Source
  392. CGGAAGAGCGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAAT 7 0.13999999999999999 Illumina Paired End PCR Primer 2 (96% over 33bp)
  393. CGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGAC 7 0.13999999999999999 Illumina Paired End PCR Primer 2 (100% over 35bp)
  394. >>END_MODULE
  395. >>Kmer Content fail
  396. #Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
  397. CCCCC 1110 9.557241 23.193876 44
  398. AAAAA 2130 4.1300144 5.698024 7
  399. CTCCC 530 3.5749238 11.56272 11
  400. CCTCC 510 3.440021 11.56272 14
  401. CTGGG 465 3.1575248 8.314476 45
  402. TGGAA 785 2.929684 6.397646 17
  403. GGGGG 335 2.9167063 10.660779 6
  404. GAATG 775 2.8923633 10.053445 20
  405. CCCAG 450 2.8820548 7.8420706 22
  406. GTGTG 520 2.7661672 6.513526 23
  407. TGTGT 660 2.744307 6.109576 27
  408. GGGAG 425 2.7401958 6.315732 6
  409. ATGGA 730 2.7244196 6.397646 20
  410. GCTGG 395 2.6821985 6.651581 16
  411. GGAGG 410 2.643483 7.894665 7
  412. GGAAT 700 2.612457 7.3115954 19
  413. GCAGG 400 2.5732677 14.17877 16
  414. CCTGG 370 2.5068476 6.6367774 7
  415. CAGCC 380 2.4337354 6.273657 4
  416. TGGGA 480 2.419065 7.40506 20
  417. AATGG 645 2.4071925 5.4836965 18
  418. GCCTC 355 2.3998654 6.622006 2
  419. CCCTC 355 2.394524 8.259085 13
  420. CCAGC 370 2.3696895 6.2736564 14
  421. GGAAG 495 2.3634295 14.031037 2
  422. GGCTG 345 2.3426795 9.97737 24
  423. CAGGA 490 2.3343499 13.99981 17
  424. CCAGG 360 2.3107867 6.2876506 11
  425. CTGTG 435 2.3088553 9.09864 44
  426. GCCTG 340 2.3035896 8.295971 5
  427. TCCCA 460 2.3028264 6.1297736 9
  428. CTGCC 340 2.2984629 8.277508 10
  429. CAGCA 480 2.2816207 10.47649 14
  430. TTCCT 545 2.256056 7.0961456 1
  431. CTCCT 415 2.1929073 6.4701333 15
  432. TCCCC 325 2.1921701 6.6072683 28
  433. CAGGC 335 2.1503155 6.2876506 14
  434. CCCCA 335 2.1407545 6.259694 20
  435. TGGTG 400 2.127821 6.513526 9
  436. CCCCT 315 2.1247187 6.607268 12
  437. GGCAG 330 2.122946 6.301676 16
  438. CTCTG 400 2.1183603 5.187652 16
  439. TTCCA 540 2.1177678 6.7228537 28
  440. CAGAG 440 2.0961509 5.833255 28
  441. CCCTG 310 2.095657 6.622006 24
  442. AGGGA 435 2.0769534 5.846266 1
  443. CTCAG 410 2.0570977 6.143447 24
  444. CTTCC 385 2.034384 6.4701333 17
  445. AGCAG 425 2.0246909 10.499857 15
  446. AGGAA 570 2.015381 10.390455 18
  447. TCCTC 380 2.0079634 5.1761065 1
  448. TCAGC 400 2.0069244 12.286894 44
  449. AGAGC 420 2.0008712 10.499858 5
  450. TCCTG 375 1.9859626 6.4845653 8
  451. TCTCC 375 1.9815428 5.1761065 8
  452. CACCC 310 1.9809967 6.259694 9
  453. TGTGG 370 1.9682345 5.210821 4
  454. GATGG 390 1.9654902 6.1708827 1
  455. TGGCT 370 1.9638538 9.098641 45
  456. TCCCT 370 1.9551222 5.1761065 37
  457. CAGGG 300 1.9299511 6.3016763 21
  458. AAGAG 545 1.9269869 9.524584 4
  459. CAGAA 545 1.9226985 6.0476103 6
  460. CTGAG 380 1.9108309 6.15715 11
  461. TCTCT 460 1.9041945 5.068676 8
  462. GAGGC 295 1.897785 6.301676 22
  463. CCCAC 295 1.885142 6.259694 4
  464. CCTGC 275 1.8590509 9.93301 6
  465. CCTGT 350 1.8535651 6.4845653 6
  466. TTTCC 445 1.8421009 5.0686755 14
  467. TGCCT 345 1.8270856 5.187652 12
  468. CACAC 380 1.8022629 5.8073177 17
  469. CCTCT 340 1.7965988 7.7641597 2
  470. TTCCC 340 1.7965986 6.470133 18
  471. GAAGA 500 1.767878 7.792842 26
  472. CTGGC 260 1.7615684 6.636777 8
  473. TTCAG 440 1.7294377 9.6255 12
  474. CTCTC 325 1.717337 5.1761065 3
  475. GTGGT 320 1.7022567 5.2108207 24
  476. GGGTG 250 1.7013805 8.333022 28
  477. TGCTT 410 1.7010024 5.0799813 4
  478. CTTTG 405 1.6802584 5.0799813 2
  479. AGAAG 475 1.6794841 5.1952276 22
  480. ACTCC 330 1.6520276 6.1297736 10
  481. CTGCT 310 1.6417291 6.4845653 3
  482. GCCCC 190 1.6395733 6.339712 37
  483. AGTGG 325 1.6379085 6.1708827 3
  484. TGGCA 325 1.6342632 6.1571493 16
  485. GGCTC 240 1.626063 6.636776 25
  486. ACACA 460 1.6192161 5.1721287 14
  487. GCTTT 390 1.6180266 5.0799813 5
  488. TTCTG 390 1.6180266 5.0799813 3
  489. TCCTT 390 1.6144258 6.0824113 16
  490. CCCAA 335 1.588837 5.8073177 10
  491. GCACA 330 1.5686142 5.8202715 18
  492. GTTCA 395 1.5525635 7.700401 11
  493. TCTTC 375 1.5523325 5.068676 4
  494. AGGCA 325 1.5482932 5.8332543 6
  495. GGGGA 240 1.5474048 6.3157325 7
  496. CCTTC 290 1.5323931 6.4701333 17
  497. ATGCC 305 1.5302798 12.286893 22
  498. GAAGG 320 1.5278738 5.8462653 8
  499. GGGAT 295 1.4867171 7.40506 21
  500. TGTGC 280 1.4861598 5.199224 7
  501. AACAG 420 1.4817125 5.1836653 10
  502. TCTTT 455 1.4755235 5.5590916 1
  503. TTGGC 275 1.4596211 5.199223 15
  504. GAGAT 385 1.4368514 6.397646 27
  505. TTTGG 345 1.4345239 6.1095753 3
  506. GGTTC 270 1.4330826 10.398446 10
  507. CCTTG 265 1.4034137 5.187652 18
  508. CCCTT 265 1.4002901 5.176106 14
  509. CTGTT 335 1.3898433 5.0799813 10
  510. CCTTT 335 1.3867503 5.068676 8
  511. GGCAC 215 1.3800533 6.2876506 17
  512. TTGAA 465 1.3564935 6.4295163 7
  513. CTTGG 255 1.3534669 5.1992235 18
  514. GTGTT 325 1.3513632 5.091313 28
  515. GGCCC 155 1.3405302 6.353853 2
  516. TGGTT 320 1.330573 5.091313 25
  517. TTCTT 410 1.3295923 7.941558 4
  518. GGGGT 195 1.327077 8.333022 45
  519. AAGGA 375 1.3259085 5.1952276 44
  520. CAGAT 350 1.3033215 5.471493 10
  521. CTGGT 245 1.3003898 5.1992235 12
  522. TGTCC 245 1.2974956 5.187652 21
  523. GCTCC 190 1.2844352 8.277508 26
  524. GACAG 265 1.2624544 5.833254 27
  525. GAGCG 195 1.2544682 12.603353 6
  526. TTGGG 235 1.2500948 6.5135255 6
  527. AATGC 335 1.2474647 10.031068 21
  528. GGCTT 235 1.2473125 5.199223 4
  529. TTTGC 295 1.223892 5.0799813 9
  530. GGTGT 230 1.223497 5.21082 27
  531. GATCG 235 1.181698 6.1571493 45
  532. AGCTC 225 1.1288949 6.1434464 25
  533. ACCCT 225 1.1263824 6.129773 10
  534. CGGAA 235 1.119535 9.333206 1
  535. CCCAT 220 1.1013516 6.129773 21
  536. TCTTG 265 1.0994283 5.0799813 21
  537. ATGCA 295 1.0985136 5.4714913 37
  538. GCTTG 205 1.0880812 5.199223 2
  539. AGCGG 165 1.061473 12.603352 7
  540. AACCA 300 1.0560105 5.1721287 22
  541. AACCT 280 1.0403365 5.4593143 13
  542. CCGAG 160 1.0270164 12.575301 25
  543. TTGCC 190 1.0062209 5.1876516 3
  544. ACTCA 265 0.9846043 5.4593153 11
  545. CTCAT 250 0.98044825 5.7624474 4
  546. GTTCC 185 0.9797416 6.4845653 27
  547. GAACC 205 0.97444224 5.820272 25
  548. GGCGG 110 0.9555928 10.637051 44
  549. GCGGT 130 0.8827489 13.303162 8
  550. GCGGG 100 0.86872077 6.3822303 45
  551. TGCCG 125 0.846908 14.93275 23
  552. AGGCG 120 0.7719804 6.3016763 15
  553. CGGTT 140 0.74307984 10.398446 9
  554. GCCGA 115 0.738168 12.575301 24
  555. CGAGA 130 0.61931723 9.333206 26
  556. CGGGA 85 0.5468194 6.301676 24
  557. CACGG 85 0.54560244 6.2876506 37
  558. >>END_MODULE