Table 2 RNAseq overview and mapping
Characteristics* | STM 2683 | STM 4661 | ||||
|---|---|---|---|---|---|---|
Control (TY) | Zinc (0.5 mM) | Cadmium (0.025 mM) | Control (TY) | Zinc (0.5 mM) | Cadmium (0.025 mM) | |
Total read number | 81,308,886 (100%) | 73,773,403 (100%) | 68,813,483 (100%) | 72,111,015 (100%) | 74,765,870 (100%) | 81,587,705 (100%) |
Nb of unmapped reads | 1,949,038 (2.40%) | 2,031,313 (2.75%) | 1,892,551 (2.75%) | 1,623,268 (2.25%) | 1,718,059 (2.30%) | 1,776,552 (2.18%) |
Nb of reads mapped at least once | 79,359,848 (97.60%) | 71,742,090 97.25%) | 66,920,932 (97.25%) | 70,487,747 (97.75%) | 73,047,811 (97.70%) | 79,811,153 (97.82%) |
Nb of reads mapped on rRNA | 41,428,635 (50.95%) | 30,531,652 (41.39%) | 32,224,949 (46.83%) | 39,466,389 (54.73%) | 37,982,860 (50.80%) | 47,500,946 (58.22%) |
rRNA depletion rate ** | 94.3 | 96.1 | 95.1 | 93.3 | 94.3 | 92.3 |
Nb of reads kept (only reads uniquely mapped) | 78,729,668 (96.83%) | 71,178,074 (96.48%) | 66,380,750 (96.46%) | 70,090,461 (97.20%) | 72,683,423 (97.21%) | 79,431,748 (97.36%) |
Nb of reads kept against chromosome | 78,147,818 (96.11%) | 70,490,263 (95.55%) | 65,861,607 (95.71%) | 69,802,581 (96.80%) | 72,348,246 (96.77%) | 79,118,286 (96.97%) |
Nb of reads kept against plasmid | 581,850 (0.72%) | 687,811 (0.93%) | 519,143 (0.75%) | 287,880 (0.40%) | 335,177 (0.45%) | 313,462 (0.38%) |
Nb of reads kept for downstream analyses*** | 37,301,033 (45.86%) | 40,646,422 (55.10%) | 34,155,801 (49.64%) | 30,624,072 (42.47%) | 34,700,563 (46.41%) | 31,930,802 (39.14%) |