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Table 1 Statistics of the total reads mapped to the reference genome from five libraries

From: Identification of regulatory factors promoting embryogenic callus formation in barley through transcriptome analysis

Sample

Valid reads

Mapped reads

Unique mapped reads

Multi-mapped reads

PE mapped reads

Reads map to sense strand

Reads map to antisense strand

IME_0h

1

50,508,092

46,525,933 (92.12%)

34,881,919 (69.06%)

11,644,014 (23.05%)

43,551,514 (86.23%)

19,365,009 (38.34%)

19,429,297 (38.47%)

2

50,725,082

46,718,943 (92.10%)

35,343,451 (69.68%)

11,375,492 (22.43%)

43,728,232 (86.21%)

19,462,644 (38.37%)

19,535,977 (38.51%)

3

51,346,982

47,181,924 (91.89%)

35,467,427 (69.07%)

11,714,497 (22.81%)

43,783,770 (85.27%)

19,463,881 (37.91%)

19,543,884 (38.06%)

IME_24h

1

42,482,012

39,600,956 (93.22%)

29,826,685 (70.21%)

9,774,271 (23.01%)

37,024,224 (87.15%)

16,758,583 (39.45%)

16,767,271 (39.47%)

2

46,361,390

43,046,755 (92.85%)

32,242,450 (69.55%)

10,804,305 (23.30%)

40,242,720 (86.80%)

17,995,697 (38.82%)

18,002,730 (38.83%)

3

49,289,192

45,811,254 (92.94%)

34,207,322 (69.40%)

11,603,932 (23.54%)

42,805,810 (86.85%)

19,165,613 (38.88%)

19,175,961 (38.91%)

IME_48h

1

50,064,794

45,466,924 (90.82%)

33,987,373 (67.89%)

11,479,551 (22.93%)

42,464,724 (84.82%)

18,904,502 (37.76%)

18,898,466 (37.75%)

2

52,617,624

48,950,150 (93.03%)

36,748,315 (69.84%)

12,201,835 (23.19%)

45,431,552 (86.34%)

20,474,061 (38.91%)

20,481,498 (38.93%)

3

51,022,778

47,542,104 (93.18%)

35,553,488 (69.68%)

11,988,616 (23.50%)

44,136,992 (86.50%)

19,950,036 (39.10%)

19,953,944 (39.11%)

ME_0h

1

44,726,072

41,111,321 (91.92%)

30,307,401 (67.76%)

10,803,920 (24.16%)

38,293,348 (85.62%)

17,002,182 (38.01%)

17,013,183 (38.04%)

2

48,998,490

44,815,937 (91.46%)

33,012,162 (67.37%)

11,803,775 (24.09%)

41,883,774 (85.48%)

18,641,797 (38.05%)

18,639,916 (38.04%)

3

51,294,828

46,955,145 (91.54%)

34,689,826 (67.63%)

12,265,319 (23.91%)

43,865,372 (85.52%)

19,319,169 (37.66%)

19,322,335 (37.67%)

ME_24h

1

49,828,700

46,579,576 (93.48%)

34,747,312 (69.73%)

11,832,264 (23.75%)

43,617,610 (87.54%)

19,371,793 (38.88%)

19,360,153 (38.85%)

2

51,117,256

47,940,378 (93.79%)

35,939,931 (70.31%)

12,000,447 (23.48%)

44,326,868 (86.72%)

20,082,418 (39.29%)

20,078,786 (39.28%)

3

49,956,734

46,882,189 (93.85%)

34,969,303 (70.00%)

11,912,886 (23.85%)

43,922,646 (87.92%)

19,662,673 (39.36%)

19,650,293 (39.33%)

  1. Sample: sequencing library name; Valid reads: the number of reads after UID deduplication; Mapped reads: the number of reads that can be compared to the genome; Unique mapped reads: the number of reads that can only be uniquely aligned to a position in the genome; Multi-mapped reads: the number of reads that can be compared to multiple positions in the genome; PE mapped reads: pair-end sequencing reads are paired to the genome reads; Reads map to sense strand: after UMI deduplication, read comparison to the statistics of the sense strand of the genome; Reads map to antisense strand: after UMI deduplication, the statistics of read alignment to the negative sense strand of the genome
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BMC Plant Biology

ISSN: 1471-2229

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