EggNog evalue and score
Zara-Ahmad opened this issue · 1 comments
Zara-Ahmad commented
Hi, I want to ask about the evalue and score when we use eggnog mapper. What is the the score and e value signify.
I am annotating the WGS using EGGNOC mapper with each gene i get this score can you please tell me what is this score is is about. How should i interperate it amd what is the init for this.
<style> </style>| #query | seed_ortholog | evalue | score | eggNOG_OGs | max_annot_lvl | COG_category | Description | Preferred_name | GOs | EC | KEGG_ko | KEGG_Pathway | KEGG_Module | KEGG_Reaction | KEGG_rclass | BRITE | KEGG_TC | CAZy | BiGG_Reaction | PFAMs |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| assembly_contig_1_1 | 1201292.DR75_517 | 1.39e-191 | 532.0 | COG3711@1|root,COG3711@2|Bacteria,1TT5A@1239|Firmicutes,4HC5Y@91061|Bacilli,4B1PC@81852|Enterococcaceae | 91061|Bacilli | K | CAT RNA binding domain | sacT | - | - | ko:K03488 | - | - | - | - | ko00000,ko03000 | - | - | - | CAT_RBD,PRD |
| assembly_contig_1_2 | 226185.EF_1516 | 0.0 | 1267.0 | COG1263@1|root,COG1264@1|root,COG2190@1|root,COG1263@2|Bacteria,COG1264@2|Bacteria,COG2190@2|Bacteria,1TPJ8@1239|Firmicutes,4HA8X@91061|Bacilli,4AZ9R@81852|Enterococcaceae | 91061|Bacilli | G | phosphotransferase system, EIIB | nagE | - | 2.7.1.193,2.7.1.199 | ko:K02802,ko:K02803,ko:K02804,ko:K20116,ko:K20117,ko:K20118 | ko00010,ko00520,ko02060,map00010,map00520,map02060 | M00267,M00809 | R02738,R05199 | RC00017,RC03206 | ko00000,ko00001,ko00002,ko01000,ko02000 | 4.A.1.1.13,4.A.1.1.14,4.A.1.1.15,4.A.1.1.2,4.A.1.1.5,4.A.1.1.7,4.A.1.1.9 | - | iSB619.SA_RS08720 | PTS_EIIA_1,PTS_EIIB,PTS_EIIC |
| assembly_contig_1_3 | 1201292.DR75_519 | 0.0 | 924.0 | COG3711@1|root,COG3711@2|Bacteria,1TSGM@1239|Firmicutes,4HB3W@91061|Bacilli,4B0I0@81852|Enterococcaceae | 91061|Bacilli | K | PRD domain | - | - | - | ko:K02538 | - | - | - | - | ko00000,ko03000 | - | - | - | HTH_11,Mga,PRD,PTS_IIB |
| assembly_contig_1_4 | 1201292.DR75_520 | 2.83e-92 | 271.0 | COG1762@1|root,COG1762@2|Bacteria,1VIS8@1239|Firmicutes,4HPYD@91061|Bacilli,4B2S6@81852|Enterococcaceae | 91061|Bacilli | G | Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2 | - | - | - | ko:K02806 | ko02060,map02060 | - | - | - | ko00000,ko00001,ko01000,ko02000 | - | - | - | PTS_EIIA_2 |
| assembly_contig_1_5 | 1201292.DR75_521 | 1.94e-64 | 197.0 | COG1445@1|root,COG1445@2|Bacteria,1VASC@1239|Firmicutes,4HKYF@91061|Bacilli,4B2ZB@81852|Enterococcaceae | 91061|Bacilli | G | IIB component | - | - | 2.7.1.202 | ko:K02769 | ko00051,ko01100,ko01120,ko02060,map00051,map01100,map01120,map02060 | M00273 | R03232 | RC00017,RC03206 | ko00000,ko00001,ko00002,ko01000,ko02000 | 4.A.2.1 | - | - | PTS_IIB |
| assembly_contig_1_6 | 1201292.DR75_522 | 3.61e-99 | 288.0 | COG1762@1|root,COG1762@2|Bacteria,1V5TG@1239|Firmicutes,4HHQJ@91061|Bacilli,4B1TR@81852|Enterococcaceae | 91061|Bacilli | G | Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2 | - | - | 2.7.1.202 | ko:K02768 | ko00051,ko01100,ko01120,ko02060,map00051,map01100,map01120,map02060 | M00273 | R03232 | RC00017,RC03206 | ko00000,ko00001,ko00002,ko01000,ko02000 | 4.A.2.1 | - | - | PTS_EIIA_2 |
| assembly_contig_1_7 | 1201292.DR75_523 | 8.05e-215 | 598.0 | COG1299@1|root,COG1299@2|Bacteria,1TPKU@1239|Firmicutes,4H9XS@91061|Bacilli,4B0GZ@81852|Enterococcaceae | 91061|Bacilli | G | Phosphotransferase system, EIIC | - | - | - | ko:K02770 | ko00051,ko01100,ko01120,ko02060,map00051,map01100,map01120,map02060 | M00273 | R03232 | RC00017,RC03206 | ko00000,ko00001,ko00002,ko02000 | 4.A.2.1 | - | - | PTS_EIIC |
| assembly_contig_1_8 | 1201292.DR75_524 | 1.15e-166 | 465.0 | COG0036@1|root,COG0036@2|Bacteria,1TT1C@1239|Firmicutes,4HDTC@91061|Bacilli,4AZPN@81852|Enterococcaceae | 91061|Bacilli | G | Ribulose-phosphate 3 epimerase family | alsE | - | - | ko:K17195 | ko00051,ko01120,map00051,map01120 | - | R09031 | RC03111 | ko00000,ko00001,ko01000 | - | - | - | Ribul_P_3_epim |
| assembly_contig_1_9 | 1201292.DR75_525 | 1.92e-144 | 407.0 | COG0741@1|root,COG0741@2|Bacteria,1V6X7@1239|Firmicutes,4HJEB@91061|Bacilli,4B21X@81852|Enterococcaceae | 91061|Bacilli | M | Lysozyme-like | pvaA | - | - | - | - | - | - | - | - | - | - | - | Lysozyme_like |
| assembly_contig_1_10 | 1201292.DR75_526 | 0.0 | 1449.0 | COG0474@1|root,COG0474@2|Bacteria,1TPF5@1239|Firmicutes,4H9ZI@91061|Bacilli,4AZQQ@81852|Enterococcaceae | 91061|Bacilli | P | E1-E2 ATPase | ctpE | - | - | ko:K12952 | - | - | - | - | ko00000,ko01000 | 3.A.3.23 | - | - | E1-E2_ATPase,Hydrolase |
| assembly_contig_1_11 | 1201292.DR75_527 | 0.0 | 1219.0 | COG0358@1|root,COG0358@2|Bacteria,1TQ0X@1239|Firmicutes,4HAG2@91061|Bacilli,4B0UE@81852|Enterococcaceae | 91061|Bacilli | K | RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication | dnaG | - | - | ko:K02316 | ko03030,map03030 | - | - | - | ko00000,ko00001,ko01000,ko03032 | - | - | - | DnaB,DnaB_bind,Toprim_2,Toprim_4,Toprim_N,zf-CHC2 |
| assembly_contig_1_12 | 1201292.DR75_528 | 1.55e-252 | 694.0 | COG0568@1|root,COG0568@2|Bacteria,1TPD6@1239|Firmicutes,4HB1H@91061|Bacilli,4AZDR@81852|Enterococcaceae | 91061|Bacilli | K | Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth | sigA | - | - | ko:K03086 | - | - | - | - | ko00000,ko03021 | - | - | - | Sigma70_r1_1,Sigma70_r1_2,Sigma70_r2,Sigma70_r3,Sigma70_r4 |
Thank you so much.
Best, Zara
Cantalapiedra commented
Dear @Zara-Ahmad ,
If you are using the default pipeline or the web, these values are from diamond. You may find more info within diamond documentation, for instance: https://github.com/bbuchfink/diamond/wiki/1.-Tutorial#protein-alignment
Best,
Carlos