{"id":36044,"date":"2023-04-26T05:08:56","date_gmt":"2023-04-26T12:08:56","guid":{"rendered":"https:\/\/www.novogene.com\/us-en\/?post_type=news&#038;p=36044"},"modified":"2025-02-26T00:27:03","modified_gmt":"2025-02-26T08:27:03","slug":"novaseq-x-plus-new-data-release","status":"publish","type":"news","link":"https:\/\/www.novogene.com\/us-en\/about\/news\/novaseq-x-plus-new-data-release\/","title":{"rendered":"Shared SNP percentage >96% in exome library data and quantification correlation >97% in transcriptome library data &#8211; NovaSeq X Plus new data release"},"content":{"rendered":"<style>\n    p.novofont {\n        line-height: 20px;\n        color: #1f3f5a;\n    }\n   p.fontsize14 {\n        font-size: 14px;\n    }\n    .novo-table {\n        border: 1px solid #e5e5e5;\n        border-collapse: collapse;\n        margin-top: 10px;\n        font-size:12.87px;\n    }\n    .novo-table tr {\n        border: 1px solid #e5e5e5;\n    }\n    .novo-table tr:nth-child(1) {\n        font-weight:bold;\n    }\n    .novo-table tr td {\n        border: 1px solid #e5e5e5;\n        padding: 10px;\n        text-align: center;\n        width:200px;\n    }\n    h5{color:#1f3f5a;}\n    h4{font-weight:bold;}\n<\/style>\n<p>The NovaSeq X Plus platform provides extraordinary sequencing power not only for whole genome sequencing but also for whole exome sequencing and transcriptome sequencing. Following the previous release of human whole genome sequencing test on the NovaSeq X Plus, data from more library types are now available. <a href=\"https:\/\/web.novogene.com\/Website_XPlus_Premade_23Fall\" target=\"_blank\" rel=\"noopener\">Try a NovaSeq X Plus lane with Novogene\uff01<\/a><\/p>\n<h4>1. Testing Result of Human Whole Exome Sequencing Library<\/h4>\n<p >To further evaluate the platform&#8217;s performance, a whole exome sequencing library with NA12878 was simultaneously sequenced on both the NovaSeq X Plus and NovaSeq 6000 platforms. The library was prepared using Agilent SureSelect Human All Exon V6.<\/p>\n<h5>1.1 Quality Control<\/h5>\n<p >Compared with the NovaSeq 6000, the NovaSeq X Plus platform performs better in Q30, with an average of 95.70%.<\/p>\n<div style=\"text-align: center;\">Table 1 Quality control of whole exome sequencing library<\/div>\n<div style=\"800px;overflow-x:auto\">\n<table class=\"novo-table\" style=\"width: 2026px;\">\n<tr>\n<td>Sample<\/td>\n<td>Platform<\/td>\n<td>Effective (%)<\/td>\n<td>Error (%)<\/td>\n<td>Q20 (%)<\/td>\n<td>Q30 (%)<\/td>\n<td>GC (%)<\/td>\n<td>Containing N (%)<\/td>\n<td>Low quality (%)<\/td>\n<td>Adapter related (%)<\/td>\n<\/tr>\n<tr>\n<td>S_W<\/td>\n<td>NovaSeq 6000<\/td>\n<td>97.88<\/td>\n<td>0.02<\/td>\n<td>98.31<\/td>\n<td>95.19<\/td>\n<td>51.97<\/td>\n<td>0.00<\/td>\n<td>0.00<\/td>\n<td>2.11<\/td>\n<\/tr>\n<tr>\n<td>S_FC1_WL1X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>97.19<\/td>\n<td>0.03<\/td>\n<td>97.59<\/td>\n<td>95.73<\/td>\n<td>51.26<\/td>\n<td>0.01<\/td>\n<td>0.00<\/td>\n<td>2.8<\/td>\n<\/tr>\n<tr>\n<td>S_FC1_WL2X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>97.00<\/td>\n<td>0.02<\/td>\n<td>97.87<\/td>\n<td>96.13<\/td>\n<td>51.26<\/td>\n<td>0.01<\/td>\n<td>0.00<\/td>\n<td>2.99<\/td>\n<\/tr>\n<tr>\n<td>S_FC2_WL1X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>97.83<\/td>\n<td>0.03<\/td>\n<td>97.23<\/td>\n<td>95.56<\/td>\n<td>50.58<\/td>\n<td>0.00<\/td>\n<td>0.00<\/td>\n<td>2.17<\/td>\n<\/tr>\n<tr>\n<td>S_FC2_WL2X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>97.73<\/td>\n<td>0.03<\/td>\n<td>97.21<\/td>\n<td>95.37<\/td>\n<td>50.66<\/td>\n<td>0.00<\/td>\n<td>0.00<\/td>\n<td>2.27<\/td>\n<\/tr>\n<\/table>\n<\/div>\n<h5>1.2 Mapping Statistics<\/h5>\n<p class=\"fontsize14\">The NovaSeq X Plus achieves even coverage across the entire exome, with coverage of 99.5% and capture efficiency of 67.6%.<\/p>\n<div style=\"margin-top:20px;text-align: center;\">Table 2 Mapping statistics of whole exome sequencing library<\/div>\n<div style=\"800px;overflow-x:auto\">\n<table class=\"novo-table\" style=\"width: 1885px;\">\n<tr>\n<td>Sample<\/td>\n<td>Platform<\/td>\n<td>Mapped (%)<\/td>\n<td>Properly (%)<\/td>\n<td>PE (%)<\/td>\n<td>Coverage (%)<\/td>\n<td>4X (%)<\/td>\n<td>10X (%)<\/td>\n<td>20X (%)<\/td>\n<\/tr>\n<tr>\n<td>S_W<\/td>\n<td>NovaSeq 6000<\/td>\n<td>99.94<\/td>\n<td>98.98<\/td>\n<td>99.90<\/td>\n<td>99.50<\/td>\n<td>99.10<\/td>\n<td>98.00<\/td>\n<td>95.10<\/td>\n<\/tr>\n<tr>\n<td>S_FC1_WL1X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>99.92<\/td>\n<td>99.16<\/td>\n<td>99.89<\/td>\n<td>99.50<\/td>\n<td>99.00<\/td>\n<td>97.70<\/td>\n<td>94.70<\/td>\n<\/tr>\n<tr>\n<td>S_FC1_WL2X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>99.91<\/td>\n<td>99.16<\/td>\n<td>99.88<\/td>\n<td>99.50<\/td>\n<td>99.00<\/td>\n<td>97.70<\/td>\n<td>94.60<\/td>\n<\/tr>\n<tr>\n<td>S_FC2_WL1X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>99.92<\/td>\n<td>99.15<\/td>\n<td>99.89<\/td>\n<td>99.50<\/td>\n<td>99.00<\/td>\n<td>97.70<\/td>\n<td>94.70<\/td>\n<\/tr>\n<tr>\n<td>S_FC2_WL2X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>99.91<\/td>\n<td>99.13<\/td>\n<td>99.87<\/td>\n<td>99.50<\/td>\n<td>99.00<\/td>\n<td>97.70<\/td>\n<td>94.70<\/td>\n<\/tr>\n<\/table>\n<\/div>\n<div style=\"text-align: center;margin-top:50px;\"><img decoding=\"async\" style=\"width: 66%;\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/hih1-1.png\"><\/p>\n<div>Figure 1 Capture efficiency in NovaSeq X Plus and NovaSeq 6000<\/div>\n<\/div>\n<h5 style=\"margin-top: 30px;\">1.3 Variant Calling Accuracy<\/h5>\n<p>The NovaSeq X Plus and NovaSeq 6000 platforms have >96% similarity in SNP detection. The SNP and InDel precision and recall deviation between the two platforms is <0.5%.\n\n\n<div style=\"text-align: center;margin-top:50px;\">\n<div>Table 3  Variant calling result of whole exome sequencing library<\/div>\n<\/div>\n<div style=\"800px;overflow-x:auto\">\n<table class=\"novo-table\" style=\"width: 1800px;\">\n<tr>\n<td>Sample<\/td>\n<td>Platform<\/td>\n<td>dbSNP   (SNP) (%)<\/td>\n<td>dbSNP (InDel)(%)<\/td>\n<td>Precision (SNP) (%)<\/td>\n<td>Recall (SNP) (%)<\/td>\n<td>F-score (SNP) (%)<\/td>\n<td>Precision (InDel) (%)<\/td>\n<td>Recall (InDel) (%)<\/td>\n<td>F-score (InDel) (%)<\/td>\n<\/tr>\n<tr>\n<td>S_W<\/td>\n<td>NovaSeq 6000<\/td>\n<td>94.02<\/td>\n<td>86.36<\/td>\n<td>99.05<\/td>\n<td>96.81<\/td>\n<td>97.92<\/td>\n<td>89.43<\/td>\n<td>89.28<\/td>\n<td>89.35<\/td>\n<\/tr>\n<tr>\n<td>S_FC1_WL1X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>94.34<\/td>\n<td>86.95<\/td>\n<td>98.92<\/td>\n<td>96.67<\/td>\n<td>97.79<\/td>\n<td>88.81<\/td>\n<td>89.62<\/td>\n<td>89.21<\/td>\n<\/tr>\n<tr>\n<td>S_FC1_WL2X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>93.94<\/td>\n<td>86.39<\/td>\n<td>98.87<\/td>\n<td>96.71<\/td>\n<td>97.78<\/td>\n<td>88.78<\/td>\n<td>90.39<\/td>\n<td>89.58<\/td>\n<\/tr>\n<tr>\n<td>S_FC2_WL1X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>94.72<\/td>\n<td>87.70<\/td>\n<td>98.90<\/td>\n<td>96.48<\/td>\n<td>97.67<\/td>\n<td>88.86<\/td>\n<td>89.19<\/td>\n<td>89.03<\/td>\n<\/tr>\n<tr>\n<td>S_FC2_WL2X<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>94.69<\/td>\n<td>87.34<\/td>\n<td>98.81<\/td>\n<td>96.56<\/td>\n<td>97.67<\/td>\n<td>88.58<\/td>\n<td>89.39<\/td>\n<td>88.98<\/td>\n<\/tr>\n<\/table>\n<\/div>\n<div style=\"text-align: center;margin-top:50px;\"><img decoding=\"async\" style=\"width: 76%;\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/1111121-1.png\"><\/p>\n<div>Figure 2 Venn diagrams of shared SNPs between NovaSeq X Plus and NovaSeq 6000<\/div>\n<\/div>\n<h4  style=\"margin-top:50px;\"> 2. Testing Result of mRNA Sequencing library<\/h4>\n<p>An mRNA sequencing library with UHRR was simultaneously sequenced on both the NovaSeq X Plus and NovaSeq 6000 to further evaluate the platform performance.<\/p>\n<h5>2.1 Quality Control and Mapping Statistics<\/h5>\n<p>The effective rate, Q30 score, and rRNA rate of NovaSeq X Plus are almost similar to that of NovaSeq 6000, with <1% deviation.\n\n\n<div style=\"margin-top:20px;text-align: center;\">Table 4 Quality control of mRNA sequencing library<\/div>\n<div style=\"800px;overflow-x:auto\">\n<table class=\"novo-table\" style=\"width: 1800px;\">\n<tr>\n<td>Sample<\/td>\n<td>Platform<\/td>\n<td>Effective (%)<\/td>\n<td>Error rate (%)<\/td>\n<td>Q20 (%)<\/td>\n<td>Q30 (%)<\/td>\n<td>GC (%)<\/td>\n<td>rRNA (%)<\/td>\n<\/tr>\n<tr>\n<td>UHRR<\/td>\n<td>NovaSeq 6000<\/td>\n<td>95.85<\/td>\n<td>0.02<\/td>\n<td>98.28<\/td>\n<td>95.05<\/td>\n<td>50.15<\/td>\n<td>2.24<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L1<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>94.21<\/td>\n<td>0.03<\/td>\n<td>97.33<\/td>\n<td>95.28<\/td>\n<td>49.19<\/td>\n<td>1.48<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L2<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>93.85<\/td>\n<td>0.02<\/td>\n<td>97.70<\/td>\n<td>95.79<\/td>\n<td>49.15<\/td>\n<td>1.24<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L3<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>95.54<\/td>\n<td>0.03<\/td>\n<td>97.07<\/td>\n<td>95.25<\/td>\n<td>48.47<\/td>\n<td>1.58<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L4<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>95.44<\/td>\n<td>0.03<\/td>\n<td>97.02<\/td>\n<td>95.02<\/td>\n<td>48.55<\/td>\n<td>1.23<\/td>\n<\/tr>\n<\/table>\n<\/div>\n<div style=\"margin-top:20px;text-align: center;\">Table 5 Mapping statistics of mRNA sequencing library<\/div>\n<div style=\"800px;overflow-x:auto\">\n<table class=\"novo-table\" style=\"width: 1368px;\">\n<tr>\n<td>Sample<\/td>\n<td>Platform<\/td>\n<td>Mapped (%)<\/td>\n<td>Unique map (%)<\/td>\n<td>Multi map (%)<\/td>\n<td>Exon (%)<\/td>\n<\/tr>\n<tr>\n<td>UHRR<\/td>\n<td>NovaSeq 6000<\/td>\n<td>95.71<\/td>\n<td>92.85<\/td>\n<td>2.86<\/td>\n<td>90.16<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L1<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>94.90<\/td>\n<td>92.34<\/td>\n<td>2.56<\/td>\n<td>90.16<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L2<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>95.05<\/td>\n<td>92.39<\/td>\n<td>2.66<\/td>\n<td>90.13<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L3<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>90.19<\/td>\n<td>87.90<\/td>\n<td>2.28<\/td>\n<td>90.07<\/td>\n<\/tr>\n<tr>\n<td>UHRR_L4<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>92.37<\/td>\n<td>90.08<\/td>\n<td>2.29<\/td>\n<td>90.08<\/td>\n<\/tr>\n<\/table>\n<\/div>\n<h5>2.2 Quantification and Correlation<\/h5>\n<p>The quantification results indicate that the NovaSeq X Plus and NovaSeq 6000 platforms have high similarity in gene expression. The R<sup>2<\/sup> value between the two platforms is >0.97, which is comparable to the R<sup>2<\/sup> value between two lanes in the NovaSeq X Plus.<\/p>\n<div style=\"text-align: center;margin-top:50px;\">\n<div class=\"row\">\n<div class=\"col-md-4\"><img decoding=\"async\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/ttttt3.png\" alt=\"\" \/><\/div>\n<div  class=\"col-md-4\"><img decoding=\"async\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/hhhh4.png\" alt=\"\" \/><\/div>\n<div  class=\"col-md-4\"><img decoding=\"async\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/wwww5.png\" alt=\"\" \/><\/div>\n<\/div>\n<div>Figure 3 Quantification and correlation features of mRNA sequencing library in NovaSeq X Plus and NovaSeq 6000<\/div>\n<\/div>\n<h4 style=\"margin-top:20px\">3. Testing Result of LncRNA Sequencing Library<\/h4>\n<p>LncRNA sequencing library with UHRR was simultaneously sequenced on the NovaSeq X Plus and NovaSeq 6000 to further evaluate the platform performance.<\/p>\n<h5>3.1 Quality Control and Mapping Statistics<\/h5>\n<p>When compared to the NovaSeq 6000, the effective rate, Q30 and rRNA rate of the LncRNA sequencing library on the NovaSeq X Plus showed almost identical results, with <1% deviation.\n\n\n<div style=\"margin-top:20px;text-align: center;\">Table 6 Quality control of lncRNA sequencing library<\/div>\n<div style=\"800px;overflow-x:auto\">\n<table class=\"novo-table\" style=\"width: 1800px;\">\n<tr>\n<td>Sample<\/td>\n<td>Platform<\/td>\n<td>Effective (%)<\/td>\n<td>Error rate (%)<\/td>\n<td>Q20 (%)<\/td>\n<td>Q30 (%)<\/td>\n<td>GC (%)<\/td>\n<td>rRNA (%)<\/td>\n<\/tr>\n<tr>\n<td>UHRR_control<\/td>\n<td>NovaSeq 6000<\/td>\n<td>98.42<\/td>\n<td>0.02<\/td>\n<td>98.14<\/td>\n<td>94.63<\/td>\n<td>51.17<\/td>\n<td>0.60<\/td>\n<\/tr>\n<tr>\n<td>UHRR_Lnc1<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>97.74<\/td>\n<td>0.03<\/td>\n<td>97.09<\/td>\n<td>94.83<\/td>\n<td>49.94<\/td>\n<td>0.29<\/td>\n<\/tr>\n<tr>\n<td>UHRR_Lnc2<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>97.58<\/td>\n<td>0.03<\/td>\n<td>97.49<\/td>\n<td>95.37<\/td>\n<td>49.93<\/td>\n<td>0.33<\/td>\n<\/tr>\n<tr>\n<td>UHRR_Lnc3<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>98.16<\/td>\n<td>0.03<\/td>\n<td>96.83<\/td>\n<td>94.63<\/td>\n<td>49.20<\/td>\n<td>0.27<\/td>\n<\/tr>\n<\/table>\n<\/div>\n<div style=\"margin-top:20px;text-align: center;\">Table 7 Mapping statistics of lncRNA sequencing library<\/div>\n<div style=\"800px;overflow-x:auto\">\n<table class=\"novo-table\" style=\"width: 1368px;\">\n<tr>\n<td>Sample<\/td>\n<td>Platform<\/td>\n<td>Mapped (%)<\/td>\n<td>Unique map (%)<\/td>\n<td>Multi map(%)<\/td>\n<td>Exon map (%)<\/td>\n<\/tr>\n<tr>\n<td>UHRR_control<\/td>\n<td>NovaSeq 6000<\/td>\n<td>96.83<\/td>\n<td>93.54<\/td>\n<td>3.29<\/td>\n<td>68.14<\/td>\n<\/tr>\n<tr>\n<td>UHRR_Lnc1<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>96.07<\/td>\n<td>93.06<\/td>\n<td>3.01<\/td>\n<td>67.20<\/td>\n<\/tr>\n<tr>\n<td>UHRR_Lnc2<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>96.22<\/td>\n<td>93.09<\/td>\n<td>3.12<\/td>\n<td>67.11<\/td>\n<\/tr>\n<tr>\n<td>UHRR_Lnc3<\/td>\n<td>NovaSeq X Plus<\/td>\n<td>94.08<\/td>\n<td>91.48<\/td>\n<td>2.60<\/td>\n<td>66.45<\/td>\n<\/tr>\n<\/table>\n<\/div>\n<h5>3.2 Quantification and Correlation<\/h5>\n<p>The quantification results indicate that the gene expression similarity between the NovaSeq X Plus and the NovaSeq 6000 is high, with an R<sup>2<\/sup> value >0.96, which is similar to the R<sup>2<\/sup> value between two lanes on the NovaSeq X Plus platform.<\/p>\n<div style=\"text-align: center;margin-top:50px;\">\n<div class=\"row\">\n<div class=\"col-md-4\"><img decoding=\"async\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/boxplot-1.png\" alt=\"\" \/><\/div>\n<div  class=\"col-md-4\"><img decoding=\"async\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/correlation.png\" alt=\"\" \/><\/div>\n<div  class=\"col-md-4\"><img decoding=\"async\" src=\"https:\/\/www.novogene.com\/us-en\/wp-content\/uploads\/sites\/4\/2023\/04\/PCA2D.png\" alt=\"\" \/><\/div>\n<\/div>\n<div style=\"margin-top:30px;margin-bottom:30px;\">Figure 4 Quantification and correlation features of lncRNA sequencing library in NovaSeq X Plus and NovaSeq 6000<\/div>\n<\/div>\n<p>In summary, the NovaSeq X Plus platform demonstrates improved data quality and high consistency with the NovaSeq 6000 in whole genome, whole exome, and transcriptome sequencing libraries. With its outstanding performance in data quality, turnaround time, and affordable price, the NovaSeq X Plus is an attractive option for studies related to population genomics, gene function and regulation. <\/p>\n<p><h4>About Novogene<\/h4>\n<p>Novogene is a pioneer in applying cutting-edge molecular biology technology and high-performance computing to research in the fields of life science and human health. Our vision is to continue as a global leader in the delivery of genomics services and solutions.<br \/>\nWith one of the largest sequencing capacities in the world, we utilise our deep scientific knowledge, first-class customer service and unsurpassed data quality to help clients realise their research goals in the rapidly evolving world of genomics. Novogene is committed to become your trusted genomics partner.\n<\/p>\n<div style=\"text-decoration: underline; font-size: 15px;\">Glossary of Terms:<\/div>\n<div style=\"height: 100px; overflow-y: auto;\">(1) Effective: The percentage of clean reads in all raw reads.<br \/>\n(2) Error: The average error rate of all bases on read1 and read2; the error rate of a base is obtained from equation 1.<br \/>\n(3) Q20: The percent of bases with phred-scaled quality scores greater than 20.<br \/>\n(4) Q30: The percent of bases with phred-scaled quality scores greater than 30.<br \/>\n(5) GC content: The percentage of G and C in all bases.<br \/>\n(6) Containing N: read pairs in either one read of which more than 10% of bases are uncertain.<br \/>\n(7) Low Quality: read pairs in either one read of which the proportion of low-quality bases is over 50%.<br \/>\n(8) Adapter Related: read pairs that contain adapter contamination in either one read.<br \/>\n(9) Mapped: The number of reads that mapped to the reference genome (percentage).<br \/>\n(10) Properly: The number of reads that mapped to the reference genome and within the expected insert size (percentage).<br \/>\n(11) PE mapped: The number of pair-end reads that mapped to the reference genome (percentage).<br \/>\n(12) Coverage: The coverage in the whole genome.<br \/>\n(13) 4X: The coverage in the whole genome when only bases with depth > 4X are considered.<br \/>\n(14) 10X: The coverage in the whole genome when only bases with depth > 10X are considered.<br \/>\n(15) 20X: The coverage in the whole genome when only bases with depth > 20X are considered.<br \/>\n(16) Precision=TP\/(TP+FP) (percentage)<br \/>\n(17) Recall=TP\/(TP+FN) (percentage)<br \/>\n(18) F-score=2* Precision*Recall\/(Precision + Recall)<br \/>\n(19) dbSNP (SNP): The number of SNPs that have been reported in dbSNP database divided by the total number of SNPs.<br \/>\n(20) dbSNP (InDel): The number of InDels that have been reported in dbSNP database divided by the total number of InDels.<br \/>\n(21) Unique_map: Number and percentage of reads aligned to the unique position of the reference genome (for subsequent quantitative data analysis), unique mapping rate: (uniquely mapped reads)\/(total reads)*100.<br \/>\n(22) Multi_map: number and percentage of reads aligned to multiple locations in the reference genome, multiple mapping rate: (multiple mapped reads)\/(total reads)*100.<br \/>\n(23) Error_rate\uff1aAverage sequencing error rate, which is calculated by Qphred=-10log10(e).<br \/>\n(24) Exon: The number of reads aligned to exon regions of the genome and its proportion in clean reads.<br \/>\n(25) Exon map: The number of bases aligned to exon regions of the genome and its proportion to the number of bases aligned to the genome.<\/div>\n","protected":false},"featured_media":36055,"parent":0,"menu_order":13,"template":"","meta":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO Premium plugin v20.8 (Yoast SEO v20.8) - 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