MetaAmp Version 2.0 Results

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MetaAmp analysis results:

Analysis name: benchmark

Parameters for running metaamp: /export/data/web/metaamp/bin/metaamp.pl -map mapping.txt -g rRNA -an benchmark -seqtype paired -seqformat fastq -s 0.97 -minoverlen 100 -maxdiffs 8 -trunclen 350 -maxee 1 -oligos oligos.txt -pdiffs 0 -email xdong@ucalgary.ca

Submitted by xdong@ucalgary.ca at Fri Mar 24 12:58:07 MDT 2017

Download a packaged file containing all results in this page

Download reads quality control summary in text format

QC Reads Statistical Summary


Name Count Percent% Min Max Mean Median STD Total bases
Pooled Sample 129,284 25.12 350 350 350 350 0 45,249,400
P3_rep1 4,471 14.31 350 350 350 350 0 1,564,850
P3_rep2 10,378 28.57 350 350 350 350 0 3,632,300
C1_rep2 5,886 33.00 350 350 350 350 0 2,060,100
C2_rep1 3,219 17.98 350 350 350 350 0 1,126,650
U1_rep2 8,309 32.65 350 350 350 350 0 2,908,150
C3_rep2 7,565 31.00 350 350 350 350 0 2,647,750
C4_rep1 3,729 16.50 350 350 350 350 0 1,305,150
P2_rep2 9,091 33.16 350 350 350 350 0 3,181,850
U1_rep1 3,548 19.13 350 350 350 350 0 1,241,800
C1_rep1 2,553 16.88 350 350 350 350 0 893,550
P4_rep1 6,068 19.58 350 350 350 350 0 2,123,800
C2_rep2 7,230 33.99 350 350 350 350 0 2,530,500
U2_rep1 2,788 16.20 350 350 350 350 0 975,800
U3_rep1 965 13.54 350 350 350 350 0 337,750
C4_rep2 8,089 31.73 350 350 350 350 0 2,831,150
U2_rep2 6,541 29.54 350 350 350 350 0 2,289,350
U4_rep1 3,063 16.16 350 350 350 350 0 1,072,050
C3_rep1 3,123 16.31 350 350 350 350 0 1,093,050
P1_rep1 1,764 16.99 350 350 350 350 0 617,400
U3_rep2 2,416 29.66 350 350 350 350 0 845,600
U4_rep2 7,181 30.54 350 350 350 350 0 2,513,350
P1_rep2 3,960 32.73 350 350 350 350 0 1,386,000
P2_rep1 4,004 18.71 350 350 350 350 0 1,401,400
P4_rep2 13,343 33.45 350 350 350 350 0 4,670,050

Reads Statistical Summary After Stripping Off The Technical Sequences


Name Count Percent% Min Max Mean Median STD Total bases
P3_rep1 4,613 14.77 141 428 419.02 427 12.95 1,932,935
P3_rep2 10,880 29.95 336 429 419.52 427 11.49 4,564,351
C1_rep2 6,196 34.74 345 428 422.53 427 9.72 2,618,023
C2_rep1 3,317 18.53 401 433 423.04 427 9.26 1,403,237
U1_rep2 8,734 34.32 401 429 421.29 427 10.48 3,679,578
C3_rep2 7,963 32.63 120 437 422.33 427 10.63 3,362,979
C4_rep1 3,868 17.12 158 433 421.57 427 11.15 1,630,651
P2_rep2 9,523 34.74 230 428 419.65 427 11.57 3,996,337
U1_rep1 3,665 19.76 401 428 420.33 427 11.05 1,540,513
C1_rep1 2,649 17.51 345 456 422.27 427 10.05 1,118,601
P4_rep1 6,238 20.12 62 430 419.11 427 13.23 2,614,436
C2_rep2 7,591 35.69 345 433 423.49 427 8.86 3,214,740
U2_rep1 2,882 16.75 62 429 420.71 427 12.67 1,212,500
U3_rep1 982 13.78 401 428 421.6 427 10.26 414,007
C4_rep2 8,528 33.45 246 439 421.86 427 10.39 3,597,630
U2_rep2 6,878 31.06 233 431 421.33 427 10.67 2,897,917
U4_rep1 3,157 16.65 399 429 419 427 11.65 1,322,797
C3_rep1 3,231 16.87 246 429 421.97 427 10.53 1,363,386
P1_rep1 1,814 17.47 398 428 418.79 427 11.76 759,691
U3_rep2 2,536 31.14 370 433 422.01 427 10.01 1,070,224
U4_rep2 7,535 32.05 161 429 420.51 427 11.33 3,168,516
P1_rep2 4,161 34.39 399 428 419.81 427 11.33 1,746,849
P2_rep1 4,155 19.42 246 428 419.02 427 11.96 1,741,024
P4_rep2 14,036 35.19 62 432 420.32 427 11.69 5,899,569

Reads Statistical Summary After Merging


Name Count Percent% Min Max Mean Median STD Total bases
P3_rep1 6,461 20.68 179 502 456.91 465 13.03 2,952,085
P3_rep2 11,871 32.68 255 495 457.43 465 11.98 5,430,101
C1_rep2 6,725 37.71 160 467 460.42 465 10.43 3,096,328
C2_rep1 4,504 25.16 268 500 460.91 465 9.81 2,075,932
U1_rep2 9,557 37.56 225 467 459.26 465 10.8 4,389,148
C3_rep2 8,652 35.45 158 475 460.28 465 10.77 3,982,356
C4_rep1 5,291 23.41 196 502 459.43 465 11.76 2,430,846
P2_rep2 10,415 37.99 268 500 457.57 465 11.97 4,765,585
U1_rep1 5,095 27.47 262 495 458.1 465 11.51 2,334,041
C1_rep1 3,630 24.00 186 494 460.13 465 11.07 1,670,289
P4_rep1 8,607 27.77 100 468 456.95 465 13.5 3,932,934
C2_rep2 8,268 38.87 383 493 461.42 465 8.93 3,814,996
U2_rep1 3,951 22.96 100 501 458.47 465 15.49 1,811,405
U3_rep1 1,340 18.81 147 502 459.8 465 14.32 616,137
C4_rep2 9,301 36.49 269 477 459.8 465 10.59 4,276,568
U2_rep2 7,568 34.18 271 501 459.36 465 10.68 3,476,446
U4_rep1 4,402 23.22 107 502 456.87 465 13.72 2,011,140
C3_rep1 4,489 23.44 284 495 459.78 465 10.55 2,063,936
P1_rep1 2,489 23.98 262 502 456.58 465 12.62 1,136,429
U3_rep2 2,802 34.40 408 502 460.06 465 10.32 1,289,075
U4_rep2 8,209 34.92 169 501 458.38 465 12.26 3,762,873
P1_rep2 4,491 37.12 436 467 457.83 465 11.32 2,056,093
P2_rep1 5,765 26.95 127 473 456.98 465 12.9 2,634,483
P4_rep2 15,326 38.42 100 470 458.2 465 12.1 7,022,355

Raw Reads Statistical Summary


Name R1 R2
Count Total bases Count Total bases
P3_rep1 31,241 9,394,348 31,241 9,324,418
P3_rep2 36,324 10,930,516 36,324 10,897,034
C1_rep2 17,835 5,367,331 17,835 5,350,073
C2_rep1 17,900 5,381,684 17,900 5,328,355
U1_rep2 25,447 7,658,277 25,447 7,634,404
C3_rep2 24,404 7,344,849 24,404 7,321,585
C4_rep1 22,600 6,797,252 22,600 6,726,489
P2_rep2 27,416 8,251,110 27,416 8,224,526
U1_rep1 18,549 5,581,795 18,549 5,569,189
C1_rep1 15,126 4,550,226 15,126 4,500,449
P4_rep1 30,998 9,328,395 30,998 9,307,700
C2_rep2 21,270 6,400,573 21,270 6,380,812
U2_rep1 17,205 5,154,235 17,205 5,115,277
U3_rep1 7,125 2,122,825 7,125 2,085,001
C4_rep2 25,492 7,672,548 25,492 7,648,289
U2_rep2 22,141 6,663,135 22,141 6,642,352
U4_rep1 18,959 5,676,621 18,959 5,640,703
C3_rep1 19,147 5,759,265 19,147 5,710,199
P1_rep1 10,381 3,122,740 10,381 3,087,142
U3_rep2 8,145 2,451,180 8,145 2,443,236
U4_rep2 23,511 7,074,904 23,511 7,052,705
P1_rep2 12,099 3,640,768 12,099 3,628,996
P2_rep1 21,395 6,434,666 21,395 6,372,448
P4_rep2 39,888 12,004,102 39,888 11,966,338

» OTUs

» Taxonomy annotation

Without subsampling or rarefying

With subsampling or rarefying   

» OTU and α-diversity measurements

» β-diversity measurements: OTU association   

» β-diversity measurements: PCoA analysis   

» β-diversity measurements: Tree analysis   

» β-diversity measurements: NMDs analysis   

Without subsampling or rarefying

With subsampling or rarefying

» Parsimony testing   

» Unifrac.weighted   

» Unifrac.unweighted   

» AMOVA(Analysis of Molecular Variance)   

» HOMOVA (Homogenity of Molecular Variance)