Table 4. Mapping metrics.
| Sample ID | Input | Mapped | Percentage | Unique | PercentU | Multiple | PercentM |
|---|---|---|---|---|---|---|---|
| Absolute number and percentage of reads mapped onto the hybrid transcriptome assembly obtained using EvidentialGene. Input: number of raw reads; mapped: number of reads mapping onto the reference transcriptome; percentage: percentage of reads mapping onto the reference transcriptome; unique: reads mapping to a unique location in the reference transcriptome with corresponding percentage (percentU); multiple: reads mapping to multiple locations in the reference transcriptome with corresponding percentage (percentM). The sample names are as in Table 3. | |||||||
| I_BN_r1_21 | 111,960,834 | 80,083,757 | 71.53% | 66,413,218 | 82.93% | 13,670,539 | 17.07% |
| I_BN_r2_46 | 88,250,400 | 65,226,041 | 73.91% | 52,033,898 | 79.77% | 13,192,143 | 20.23% |
| I_BN_r3_47 | 78,307,096 | 59,500,967 | 75.98% | 48,036,297 | 80.73% | 11,464,670 | 19.27% |
| I_BX_r1_09 | 97,425,554 | 74,283,576 | 76.25% | 62,543,895 | 84.20% | 11,739,681 | 15.80% |
| I_BX_r2_36 | 102,732,100 | 77,145,075 | 75.09% | 61,447,456 | 79.65% | 15,697,619 | 20.35% |
| I_BX_r3_38 | 77,326,576 | 58,031,769 | 75.05% | 46,638,628 | 80.37% | 11,393,141 | 19.63% |
| I_CA_r1_05 | 98,057,174 | 75,699,788 | 77.20% | 64,032,567 | 84.59% | 11,667,221 | 15.41% |
| I_CA_r2_35 | 95,904,538 | 71,544,033 | 74.60% | 57,839,196 | 80.84% | 13,704,837 | 19.16% |
| I_CA_r3_44 | 90,268,298 | 64,558,279 | 71.52% | 52,145,719 | 80.77% | 12,412,560 | 19.23% |
| I_CO_r1_03 | 99,207,754 | 74,962,960 | 75.56% | 63,416,691 | 84.60% | 11,546,269 | 15.40% |
| I_CO_r2_29 | 89,690,818 | 65,887,322 | 73.46% | 53,024,248 | 80.48% | 12,863,074 | 19.52% |
| I_CO_r3_31 | 88,309,332 | 66,542,581 | 75.35% | 54,249,318 | 81.53% | 12,293,263 | 18.47% |
| I_CR_r1_27 | 107,716,710 | 65,832,256 | 61.12% | 55,207,910 | 83.86% | 10,624,346 | 16.14% |
| I_CR_r2_50 | 80,318,476 | 60,003,726 | 74.71% | 48,426,482 | 80.71% | 11,577,244 | 19.29% |
| I_CR_r3_52 | 85,357,494 | 63,331,741 | 74.20% | 51,823,192 | 81.83% | 11,508,549 | 18.17% |
| I_FI_r1_15 | 97,716,802 | 69,325,492 | 70.95% | 57,272,131 | 82.61% | 12,053,361 | 17.39% |
| I_FI_r2_39 | 82,952,342 | 60,811,958 | 73.31% | 49,298,557 | 81.07% | 11,513,401 | 18.93% |
| I_FI_r3_41 | 76,395,604 | 57,925,361 | 75.82% | 46,653,689 | 80.54% | 11,271,672 | 19.46% |
| I_PA_r1_23 | 121,738,284 | 85,390,378 | 70.14% | 71,455,076 | 83.68% | 13,935,302 | 16.32% |
| I_PA_r2_56 | 124,063,814 | 92,077,396 | 74.22% | 75,330,778 | 81.81% | 16,746,618 | 18.19% |
| I_PA_r3_58 | 102,541,360 | 76,400,295 | 74.51% | 61,663,768 | 80.71% | 14,736,527 | 19.29% |
| I_TR_r1_13 | 87,546,736 | 64,947,049 | 74.19% | 55,400,302 | 85.30% | 9,546,747 | 14.70% |
| I_TR_r2_53 | 92,829,606 | 66,809,655 | 71.97% | 54,544,356 | 81.64% | 12,265,299 | 18.36% |
| I_TR_r3_54 | 141,512,050 | 104,106,636 | 73.57% | 84,382,620 | 81.05% | 19,724,016 | 18.95% |
| X_BN_r1_45 | 98,890,792 | 71,840,880 | 72.65% | 59,566,099 | 82.91% | 12,274,781 | 17.09% |
| X_BN_r2_74 | 114,440,832 | 85,650,437 | 74.84% | 71,414,344 | 83.38% | 14,236,093 | 16.62% |
| X_BN_r3_83 | 142,372,612 | 108,233,621 | 76.02% | 86,494,740 | 79.91% | 21,738,881 | 20.09% |
| X_BX_r1_48 | 101,370,384 | 71,969,721 | 71.00% | 59,654,388 | 82.89% | 12,315,333 | 17.11% |
| X_BX_r2_67 | 102,505,156 | 77,480,991 | 75.59% | 64,605,122 | 83.38% | 12,875,869 | 16.62% |
| X_BX_r3_68 | 135,939,404 | 100,320,333 | 73.80% | 83,979,132 | 83.71% | 16,341,201 | 16.29% |
| X_CA_r1_33 | 79,464,798 | 55,469,313 | 69.80% | 46,582,761 | 83.98% | 8,886,552 | 16.02% |
| X_CA_r2_60 | 100,088,508 | 75,112,653 | 75.05% | 60,181,010 | 80.12% | 14,931,643 | 19.88% |
| X_CA_r3_61 | 100,810,442 | 74,154,574 | 73.56% | 60,414,064 | 81.47% | 13,740,510 | 18.53% |
| X_CO_r1_32 | 108,558,502 | 81,543,420 | 75.11% | 67,655,636 | 82.97% | 13,887,784 | 17.03% |
| X_CO_r2_62 | 102,786,848 | 75,848,649 | 73.79% | 62,061,875 | 81.82% | 13,786,774 | 18.18% |
| X_CO_r3_76 | 147,190,146 | 106,434,191 | 72.31% | 88,808,043 | 83.44% | 17,626,148 | 16.56% |
| X_CO_r4_77 | 175,997,224 | 122,205,443 | 69.44% | 101,558,190 | 83.10% | 20,647,253 | 16.90% |
| X_CR_r1_51 | 119,104,702 | 81,268,612 | 68.23% | 67,293,396 | 82.80% | 13,975,216 | 17.20% |
| X_CR_r2_78 | 109,932,262 | 79,815,181 | 72.60% | 66,586,543 | 83.43% | 13,228,638 | 16.57% |
| X_CR_r3_79 | 156,989,062 | 99,288,707 | 63.25% | 82,718,053 | 83.31% | 16,570,654 | 16.69% |
| X_FI_r1_42 | 115,493,416 | 84,630,965 | 73.28% | 70,317,972 | 83.09% | 14,312,993 | 16.91% |
| X_FI_r2_64 | 108,791,504 | 79,180,393 | 72.78% | 65,196,666 | 82.34% | 13,983,727 | 17.66% |
| X_FI_r3_65 | 101,033,112 | 74,878,527 | 74.11% | 60,869,160 | 81.29% | 14,009,367 | 18.71% |
| X_PA_r1_55 | 88,496,496 | 65,061,089 | 73.52% | 52,747,415 | 81.07% | 12,313,674 | 18.93% |
| X_PA_r2_75 | 103,606,536 | 75,988,380 | 73.34% | 62,713,686 | 82.53% | 13,274,694 | 17.47% |
| X_PA_r3_80 | 101,971,624 | 76,658,837 | 75.18% | 62,960,881 | 82.13% | 13,697,956 | 17.87% |
| X_TR_r1_70 | 97,310,416 | 72,713,118 | 74.72% | 60,631,515 | 83.38% | 12,081,603 | 16.62% |
| X_TR_r2_73 | 99,737,474 | 70,684,693 | 70.87% | 59,520,497 | 84.21% | 11,164,196 | 15.79% |
| X_TR_r3_84 | 67,691,368 | 49,660,414 | 73.36% | 40,536,759 | 81.63% | 9,123,655 | 18.37% |
| XI_CD_r1_01 | 70,719,944 | 54,379,411 | 76.89% | 42,974,691 | 79.03% | 11,404,720 | 20.97% |
| XI_CD_r2_02 | 116,919,790 | 90,081,361 | 77.05% | 71,488,938 | 79.36% | 18,592,423 | 20.64% |
| XI_CD_r3_03 | 33,915,554 | 25,034,185 | 73.81% | 19,821,595 | 79.18% | 5,212,590 | 20.82% |
| XI_CO_r1_04 | 35,053,348 | 26,605,116 | 75.90% | 21,802,150 | 81.95% | 4,802,966 | 18.05% |
| XI_CO_r2_05 | 25,903,946 | 19,443,392 | 75.06% | 15,771,894 | 81.12% | 3,671,498 | 18.88% |
| XI_CO_r3_06 | 44,331,090 | 34,471,382 | 77.76% | 28,113,780 | 81.56% | 6,357,602 | 18.44% |
| XI_NaCl_r1_13 | 18,559,454 | 13,363,593 | 72.00% | 11,155,291 | 83.48% | 2,208,302 | 16.52% |
| XI_NaCl_r2_14 | 27,710,642 | 20,737,809 | 74.84% | 17,426,679 | 84.03% | 3,311,130 | 15.97% |
| XI_NaCl_r3_15 | 71,318,154 | 52,907,126 | 74.18% | 44,197,531 | 83.54% | 8,709,595 | 16.46% |
| XI_PH5_r1_10 | 33,561,074 | 25,250,026 | 75.24% | 20,629,525 | 81.70% | 4,620,501 | 18.30% |
| XI_PH5_r2_11 | 45,352,514 | 33,802,651 | 74.53% | 27,780,026 | 82.18% | 6,022,625 | 17.82% |
| XI_PH5_r3_12 | 55,568,578 | 41,739,579 | 75.11% | 34,148,330 | 81.81% | 7,591,249 | 18.19% |
| XI_PB_r1_07 | 26,045,292 | 19,574,223 | 75.15% | 15,859,586 | 81.02% | 3,714,637 | 18.98% |
| XI_PB_r2_08 | 50,127,824 | 38,936,820 | 77.68% | 31,320,244 | 80.44% | 7,616,576 | 19.56% |
| XI_PB_r3_09 | 40,238,958 | 30,335,619 | 75.39% | 24,569,127 | 80.99% | 5,766,492 | 19.01% |
| XI_UV_r1_16 | 69,290,648 | 51,584,530 | 74.45% | 43,040,794 | 83.44% | 8,543,736 | 16.56% |
| XI_UV_r2_17 | 65,551,018 | 48,492,486 | 73.98% | 40,789,403 | 84.11% | 7,703,083 | 15.89% |
| XI_UV_r3_18 | 46,796,848 | 35,412,890 | 75.67% | 30,005,050 | 84.73% | 5,407,840 | 15.27% |