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comparison FastQC/test-data/fastqc_data.txt @ 0:57f890a5fa73 draft

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author fubar
date Tue, 04 Jun 2013 00:01:51 -0400
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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