Mercurial > repos > bgruening > precommit_test
diff test-data/fastqc_data.txt @ 9:f126b49e93e7 draft
Uploaded
| author | bgruening |
|---|---|
| date | Thu, 06 Jun 2013 02:38:59 -0400 |
| parents | |
| children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/fastqc_data.txt Thu Jun 06 02:38:59 2013 -0400 @@ -0,0 +1,558 @@ +##FastQC 0.9.1 +>>Basic Statistics pass +#Measure Value +Filename 1000gsample.fastq +File type Conventional base calls +Encoding Sanger / Illumina 1.9 +Total Sequences 5000 +Sequence length 54 +%GC 43 +>>END_MODULE +>>Per base sequence quality warn +#Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile +1 28.9946 31.0 27.0 33.0 22.0 34.0 +2 28.486 30.0 26.0 32.0 21.0 33.0 +3 28.5272 30.0 26.0 32.0 21.0 34.0 +4 28.6252 30.0 26.0 32.0 22.0 33.0 +5 28.4804 30.0 26.0 32.0 21.0 33.0 +6 28.5128 30.0 26.0 32.0 22.0 33.0 +7 28.4102 30.0 26.0 32.0 21.0 33.0 +8 28.4674 30.0 26.0 32.0 22.0 33.0 +9 28.182 30.0 26.0 32.0 21.0 33.0 +10 28.0908 30.0 26.0 32.0 21.0 33.0 +11 28.1876 30.0 26.0 32.0 21.0 33.0 +12 28.1742 30.0 26.0 32.0 21.0 33.0 +13 27.923 30.0 25.0 32.0 20.0 33.0 +14 27.8984 29.0 25.0 32.0 21.0 33.0 +15 27.6112 29.0 25.0 32.0 20.0 33.0 +16 27.6638 29.0 25.0 32.0 20.0 33.0 +17 27.5734 29.0 25.0 32.0 20.0 33.0 +18 27.6348 29.0 25.0 32.0 20.0 33.0 +19 27.6526 29.0 25.0 32.0 20.0 33.0 +20 27.2716 29.0 24.0 32.0 19.0 33.0 +21 27.2642 29.0 25.0 31.0 19.0 33.0 +22 26.881 28.0 24.0 31.0 19.0 33.0 +23 26.8124 28.0 24.0 31.0 19.0 33.0 +24 26.8204 28.0 24.0 31.0 19.0 33.0 +25 26.6606 28.0 24.0 31.0 18.0 33.0 +26 26.3806 28.0 23.0 31.0 18.0 33.0 +27 25.947 28.0 23.0 31.0 17.0 33.0 +28 25.7446 27.0 22.0 31.0 16.0 33.0 +29 25.6856 27.0 22.0 31.0 16.0 33.0 +30 25.5228 27.0 22.0 31.0 16.0 33.0 +31 25.354 27.0 22.0 30.0 16.0 32.0 +32 25.1656 27.0 22.0 30.0 16.0 32.0 +33 25.0164 26.0 21.0 30.0 15.0 32.0 +34 24.75 26.0 21.0 30.0 15.0 32.0 +35 24.3926 26.0 21.0 30.0 15.0 32.0 +36 24.1122 25.0 20.0 30.0 14.0 32.0 +37 23.8612 25.0 20.0 29.0 13.0 32.0 +38 23.7544 25.0 20.0 29.0 13.0 32.0 +39 23.485 25.0 19.0 29.0 13.0 32.0 +40 23.1984 24.0 19.0 29.0 13.0 32.0 +41 23.0976 24.0 19.0 29.0 13.0 32.0 +42 22.9212 24.0 19.0 28.0 13.0 31.0 +43 22.5172 24.0 18.0 28.0 12.0 31.0 +44 22.3234 23.0 18.0 28.0 12.0 31.0 +45 22.1372 23.0 18.0 28.0 11.0 31.0 +46 22.2166 23.0 18.0 28.0 11.0 31.0 +47 22.075 23.0 18.0 28.0 11.0 31.0 +48 21.4592 22.0 17.0 27.0 11.0 31.0 +49 21.0954 22.0 16.0 27.0 10.0 30.0 +50 20.9356 22.0 16.0 27.0 10.0 30.0 +51 20.6152 21.0 15.0 27.0 9.0 30.0 +52 20.6588 21.0 16.0 27.0 9.0 30.0 +53 19.5852 20.0 14.0 25.0 9.0 29.0 +54 19.9424 21.0 14.0 26.0 7.0 30.0 +>>END_MODULE +>>Per sequence quality scores warn +#Quality Count +8 4.0 +9 4.0 +10 2.0 +11 2.0 +12 4.0 +13 6.0 +14 4.0 +15 11.0 +16 20.0 +17 50.0 +18 98.0 +19 149.0 +20 210.0 +21 275.0 +22 367.0 +23 425.0 +24 518.0 +25 540.0 +26 539.0 +27 532.0 +28 468.0 +29 360.0 +30 234.0 +31 122.0 +32 51.0 +33 5.0 +>>END_MODULE +>>Per base sequence content pass +#Base G A T C +1 1075 1632 1296 997 +2 1202 1586 1327 885 +3 1079 1443 1471 1007 +4 1079 1414 1445 1062 +5 1058 1486 1416 1040 +6 1119 1462 1286 1133 +7 1067 1516 1412 1005 +8 1079 1453 1397 1071 +9 1015 1424 1429 1132 +10 1060 1542 1328 1070 +11 1057 1432 1364 1147 +12 1066 1444 1450 1040 +13 1018 1461 1447 1074 +14 1001 1460 1461 1078 +15 1010 1461 1419 1110 +16 1017 1469 1465 1049 +17 1030 1457 1425 1088 +18 1030 1396 1470 1104 +19 1083 1423 1429 1065 +20 1000 1462 1448 1090 +21 1086 1425 1409 1080 +22 1026 1544 1365 1065 +23 1036 1445 1486 1033 +24 1056 1431 1379 1134 +25 1055 1453 1458 1034 +26 1109 1419 1406 1064 +27 1067 1426 1438 1068 +28 967 1527 1373 1133 +29 1045 1456 1452 1046 +30 1055 1470 1372 1103 +31 1042 1402 1433 1123 +32 992 1418 1437 1151 +33 1104 1431 1363 1101 +34 1065 1464 1363 1107 +35 1054 1471 1411 1063 +36 1070 1433 1440 1056 +37 1044 1471 1426 1057 +38 1093 1451 1403 1052 +39 1096 1412 1352 1138 +40 1066 1425 1391 1118 +41 1083 1405 1380 1129 +42 1114 1401 1385 1097 +43 1062 1421 1391 1125 +44 1070 1449 1377 1103 +45 1093 1464 1337 1106 +46 1063 1377 1387 1173 +47 1081 1413 1402 1102 +48 1064 1422 1320 1194 +49 1052 1452 1359 1136 +50 1091 1407 1340 1160 +51 1051 1386 1400 1161 +52 1091 1507 1297 1104 +53 1058 1416 1402 1123 +54 1072 1345 1339 1221 +>>END_MODULE +>>Per base GC content pass +#Base %GC +1 41.44 +2 41.74 +3 41.72 +4 42.82 +5 41.959999999999994 +6 45.04 +7 41.44 +8 43.0 +9 42.94 +10 42.6 +11 44.080000000000005 +12 42.120000000000005 +13 41.839999999999996 +14 41.58 +15 42.4 +16 41.32 +17 42.36 +18 42.68 +19 42.96 +20 41.8 +21 43.32 +22 41.82 +23 41.38 +24 43.8 +25 41.78 +26 43.47739095638256 +27 42.70854170834167 +28 42.0 +29 41.82836567313463 +30 43.16 +31 43.3 +32 42.87715086034414 +33 44.10882176435287 +34 43.44868973794759 +35 42.34846969393879 +36 42.528505701140226 +37 42.03681472589035 +38 42.90858171634327 +39 44.697879151660665 +40 43.68 +41 44.266559935961574 +42 44.24654792875725 +43 43.74874974994999 +44 43.468693738747746 +45 43.980000000000004 +46 44.72 +47 43.677470988395356 +48 45.16 +49 43.76875375075015 +50 45.038015206082434 +51 44.25770308123249 +52 43.908781756351274 +53 43.628725745149026 +54 46.071930882057465 +>>END_MODULE +>>Per sequence GC content warn +#GC Content Count +0 3.0 +1 5.0 +2 7.0 +3 7.0 +4 7.0 +5 5.0 +6 2.0 +7 1.0 +8 1.5 +9 2.0 +10 1.5 +11 1.0 +12 2.5 +13 4.0 +14 4.0 +15 4.0 +16 5.0 +17 6.0 +18 11.0 +19 19.5 +20 23.0 +21 37.5 +22 52.0 +23 61.0 +24 70.0 +25 79.0 +26 88.0 +27 117.5 +28 147.0 +29 159.5 +30 172.0 +31 203.0 +32 243.0 +33 252.0 +34 290.0 +35 328.0 +36 330.0 +37 332.0 +38 332.5 +39 333.0 +40 342.0 +41 351.0 +42 343.5 +43 336.0 +44 318.5 +45 279.5 +46 258.0 +47 254.5 +48 251.0 +49 234.5 +50 218.0 +51 209.5 +52 201.0 +53 198.5 +54 196.0 +55 177.0 +56 162.5 +57 167.0 +58 147.0 +59 127.0 +60 106.5 +61 86.0 +62 85.0 +63 84.0 +64 61.5 +65 39.0 +66 42.5 +67 46.0 +68 34.0 +69 17.0 +70 12.0 +71 14.0 +72 16.0 +73 12.5 +74 9.0 +75 6.5 +76 4.0 +77 4.5 +78 5.0 +79 5.0 +80 5.0 +81 3.0 +82 1.0 +83 1.0 +84 1.0 +85 1.0 +86 1.0 +87 1.0 +88 1.0 +89 1.0 +90 2.0 +91 3.0 +92 2.5 +93 2.0 +94 2.0 +95 3.0 +96 4.0 +97 5.0 +98 6.0 +99 3.5 +100 1.0 +>>END_MODULE +>>Per base N content pass +#Base N-Count +1 0.0 +2 0.0 +3 0.0 +4 0.0 +5 0.0 +6 0.0 +7 0.0 +8 0.0 +9 0.0 +10 0.0 +11 0.0 +12 0.0 +13 0.0 +14 0.0 +15 0.0 +16 0.0 +17 0.0 +18 0.0 +19 0.0 +20 0.0 +21 0.0 +22 0.0 +23 0.0 +24 0.0 +25 0.0 +26 0.04 +27 0.02 +28 0.0 +29 0.02 +30 0.0 +31 0.0 +32 0.04 +33 0.02 +34 0.02 +35 0.02 +36 0.02 +37 0.04 +38 0.02 +39 0.04 +40 0.0 +41 0.06 +42 0.06 +43 0.02 +44 0.02 +45 0.0 +46 0.0 +47 0.04 +48 0.0 +49 0.02 +50 0.04 +51 0.04 +52 0.02 +53 0.02 +54 0.45999999999999996 +>>END_MODULE +>>Sequence Length Distribution pass +#Length Count +54 5000.0 +>>END_MODULE +>>Sequence Duplication Levels pass +#Total Duplicate Percentage 0.66 +#Duplication Level Relative count +1 100.0 +2 0.08053150795248641 +3 0.040265753976243206 +4 0.0 +5 0.020132876988121603 +6 0.0 +7 0.040265753976243206 +8 0.0 +9 0.0 +10++ 0.0 +>>END_MODULE +>>Overrepresented sequences warn +#Sequence Count Percentage Possible Source +CGGAAGAGCGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAAT 7 0.13999999999999999 Illumina Paired End PCR Primer 2 (96% over 33bp) +CGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGAC 7 0.13999999999999999 Illumina Paired End PCR Primer 2 (100% over 35bp) +>>END_MODULE +>>Kmer Content fail +#Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position +CCCCC 1110 9.557241 23.193876 44 +AAAAA 2130 4.1300144 5.698024 7 +CTCCC 530 3.5749238 11.56272 11 +CCTCC 510 3.440021 11.56272 14 +CTGGG 465 3.1575248 8.314476 45 +TGGAA 785 2.929684 6.397646 17 +GGGGG 335 2.9167063 10.660779 6 +GAATG 775 2.8923633 10.053445 20 +CCCAG 450 2.8820548 7.8420706 22 +GTGTG 520 2.7661672 6.513526 23 +TGTGT 660 2.744307 6.109576 27 +GGGAG 425 2.7401958 6.315732 6 +ATGGA 730 2.7244196 6.397646 20 +GCTGG 395 2.6821985 6.651581 16 +GGAGG 410 2.643483 7.894665 7 +GGAAT 700 2.612457 7.3115954 19 +GCAGG 400 2.5732677 14.17877 16 +CCTGG 370 2.5068476 6.6367774 7 +CAGCC 380 2.4337354 6.273657 4 +TGGGA 480 2.419065 7.40506 20 +AATGG 645 2.4071925 5.4836965 18 +GCCTC 355 2.3998654 6.622006 2 +CCCTC 355 2.394524 8.259085 13 +CCAGC 370 2.3696895 6.2736564 14 +GGAAG 495 2.3634295 14.031037 2 +GGCTG 345 2.3426795 9.97737 24 +CAGGA 490 2.3343499 13.99981 17 +CCAGG 360 2.3107867 6.2876506 11 +CTGTG 435 2.3088553 9.09864 44 +GCCTG 340 2.3035896 8.295971 5 +TCCCA 460 2.3028264 6.1297736 9 +CTGCC 340 2.2984629 8.277508 10 +CAGCA 480 2.2816207 10.47649 14 +TTCCT 545 2.256056 7.0961456 1 +CTCCT 415 2.1929073 6.4701333 15 +TCCCC 325 2.1921701 6.6072683 28 +CAGGC 335 2.1503155 6.2876506 14 +CCCCA 335 2.1407545 6.259694 20 +TGGTG 400 2.127821 6.513526 9 +CCCCT 315 2.1247187 6.607268 12 +GGCAG 330 2.122946 6.301676 16 +CTCTG 400 2.1183603 5.187652 16 +TTCCA 540 2.1177678 6.7228537 28 +CAGAG 440 2.0961509 5.833255 28 +CCCTG 310 2.095657 6.622006 24 +AGGGA 435 2.0769534 5.846266 1 +CTCAG 410 2.0570977 6.143447 24 +CTTCC 385 2.034384 6.4701333 17 +AGCAG 425 2.0246909 10.499857 15 +AGGAA 570 2.015381 10.390455 18 +TCCTC 380 2.0079634 5.1761065 1 +TCAGC 400 2.0069244 12.286894 44 +AGAGC 420 2.0008712 10.499858 5 +TCCTG 375 1.9859626 6.4845653 8 +TCTCC 375 1.9815428 5.1761065 8 +CACCC 310 1.9809967 6.259694 9 +TGTGG 370 1.9682345 5.210821 4 +GATGG 390 1.9654902 6.1708827 1 +TGGCT 370 1.9638538 9.098641 45 +TCCCT 370 1.9551222 5.1761065 37 +CAGGG 300 1.9299511 6.3016763 21 +AAGAG 545 1.9269869 9.524584 4 +CAGAA 545 1.9226985 6.0476103 6 +CTGAG 380 1.9108309 6.15715 11 +TCTCT 460 1.9041945 5.068676 8 +GAGGC 295 1.897785 6.301676 22 +CCCAC 295 1.885142 6.259694 4 +CCTGC 275 1.8590509 9.93301 6 +CCTGT 350 1.8535651 6.4845653 6 +TTTCC 445 1.8421009 5.0686755 14 +TGCCT 345 1.8270856 5.187652 12 +CACAC 380 1.8022629 5.8073177 17 +CCTCT 340 1.7965988 7.7641597 2 +TTCCC 340 1.7965986 6.470133 18 +GAAGA 500 1.767878 7.792842 26 +CTGGC 260 1.7615684 6.636777 8 +TTCAG 440 1.7294377 9.6255 12 +CTCTC 325 1.717337 5.1761065 3 +GTGGT 320 1.7022567 5.2108207 24 +GGGTG 250 1.7013805 8.333022 28 +TGCTT 410 1.7010024 5.0799813 4 +CTTTG 405 1.6802584 5.0799813 2 +AGAAG 475 1.6794841 5.1952276 22 +ACTCC 330 1.6520276 6.1297736 10 +CTGCT 310 1.6417291 6.4845653 3 +GCCCC 190 1.6395733 6.339712 37 +AGTGG 325 1.6379085 6.1708827 3 +TGGCA 325 1.6342632 6.1571493 16 +GGCTC 240 1.626063 6.636776 25 +ACACA 460 1.6192161 5.1721287 14 +GCTTT 390 1.6180266 5.0799813 5 +TTCTG 390 1.6180266 5.0799813 3 +TCCTT 390 1.6144258 6.0824113 16 +CCCAA 335 1.588837 5.8073177 10 +GCACA 330 1.5686142 5.8202715 18 +GTTCA 395 1.5525635 7.700401 11 +TCTTC 375 1.5523325 5.068676 4 +AGGCA 325 1.5482932 5.8332543 6 +GGGGA 240 1.5474048 6.3157325 7 +CCTTC 290 1.5323931 6.4701333 17 +ATGCC 305 1.5302798 12.286893 22 +GAAGG 320 1.5278738 5.8462653 8 +GGGAT 295 1.4867171 7.40506 21 +TGTGC 280 1.4861598 5.199224 7 +AACAG 420 1.4817125 5.1836653 10 +TCTTT 455 1.4755235 5.5590916 1 +TTGGC 275 1.4596211 5.199223 15 +GAGAT 385 1.4368514 6.397646 27 +TTTGG 345 1.4345239 6.1095753 3 +GGTTC 270 1.4330826 10.398446 10 +CCTTG 265 1.4034137 5.187652 18 +CCCTT 265 1.4002901 5.176106 14 +CTGTT 335 1.3898433 5.0799813 10 +CCTTT 335 1.3867503 5.068676 8 +GGCAC 215 1.3800533 6.2876506 17 +TTGAA 465 1.3564935 6.4295163 7 +CTTGG 255 1.3534669 5.1992235 18 +GTGTT 325 1.3513632 5.091313 28 +GGCCC 155 1.3405302 6.353853 2 +TGGTT 320 1.330573 5.091313 25 +TTCTT 410 1.3295923 7.941558 4 +GGGGT 195 1.327077 8.333022 45 +AAGGA 375 1.3259085 5.1952276 44 +CAGAT 350 1.3033215 5.471493 10 +CTGGT 245 1.3003898 5.1992235 12 +TGTCC 245 1.2974956 5.187652 21 +GCTCC 190 1.2844352 8.277508 26 +GACAG 265 1.2624544 5.833254 27 +GAGCG 195 1.2544682 12.603353 6 +TTGGG 235 1.2500948 6.5135255 6 +AATGC 335 1.2474647 10.031068 21 +GGCTT 235 1.2473125 5.199223 4 +TTTGC 295 1.223892 5.0799813 9 +GGTGT 230 1.223497 5.21082 27 +GATCG 235 1.181698 6.1571493 45 +AGCTC 225 1.1288949 6.1434464 25 +ACCCT 225 1.1263824 6.129773 10 +CGGAA 235 1.119535 9.333206 1 +CCCAT 220 1.1013516 6.129773 21 +TCTTG 265 1.0994283 5.0799813 21 +ATGCA 295 1.0985136 5.4714913 37 +GCTTG 205 1.0880812 5.199223 2 +AGCGG 165 1.061473 12.603352 7 +AACCA 300 1.0560105 5.1721287 22 +AACCT 280 1.0403365 5.4593143 13 +CCGAG 160 1.0270164 12.575301 25 +TTGCC 190 1.0062209 5.1876516 3 +ACTCA 265 0.9846043 5.4593153 11 +CTCAT 250 0.98044825 5.7624474 4 +GTTCC 185 0.9797416 6.4845653 27 +GAACC 205 0.97444224 5.820272 25 +GGCGG 110 0.9555928 10.637051 44 +GCGGT 130 0.8827489 13.303162 8 +GCGGG 100 0.86872077 6.3822303 45 +TGCCG 125 0.846908 14.93275 23 +AGGCG 120 0.7719804 6.3016763 15 +CGGTT 140 0.74307984 10.398446 9 +GCCGA 115 0.738168 12.575301 24 +CGAGA 130 0.61931723 9.333206 26 +CGGGA 85 0.5468194 6.301676 24 +CACGG 85 0.54560244 6.2876506 37 +>>END_MODULE