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Dechloromonas_aromatica_RCB.faa.carbon.score
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# /home/hawking/src/mebs/scripts/pfam_score.pl call:
# -input gen_test//Dechloromonas_aromatica_RCB.faa.carbon.hmmsearch.tab -size real -bzip 0 -entropyfile cycles/carbon/entropies.tab -minentropy -9 -random 0 -keggmap cycles/carbon/pfam2kegg.tab -pathway
# total HMMs with assigned entropy in cycles/carbon/entropies.tab : 119
# Pfam entropy #matched_peptides
PF00037 0.088 26
PF13442 -0.295 25
PF12838 0.122 23
PF13187 0.166 21
PF07992 0.000 17
PF02786 0.044 11
PF01266 0.028 11
PF00970 -0.319 11
PF00175 0.124 10
PF02771 -0.356 9
PF13484 0.160 9
PF00441 -0.351 8
PF00361 0.285 7
PF00117 0.008 7
PF00384 0.302 7
PF12800 0.345 6
PF01568 0.431 6
PF02239 0.368 6
PF01058 0.483 6
PF00142 0.094 5
PF00374 1.037 5
PF03060 0.058 5
PF00696 0.002 5
PF04879 0.226 4
PF04324 -0.306 4
PF00174 0.030 4
PF13247 0.222 4
PF00148 1.799 4
PF01515 -0.261 4
PF13522 0.064 4
PF00795 -0.150 3
PF13510 -0.212 3
PF07969 0.101 3
PF00115 -0.372 3
PF00871 -0.344 3
PF01011 0.390 3
PF13806 -0.077 3
PF02142 0.099 2
PF01077 0.328 2
PF00120 0.093 2
PF00116 -0.330 2
PF00662 -0.074 2
PF03460 0.323 2
PF00484 -0.056 2
PF08669 -0.390 2
PF01571 -0.408 2
PF04060 0.958 2
PF13360 0.340 2
PF03404 -0.030 1
PF04208 2.898 1
PF01493 0.447 1
PF02812 -0.340 1
PF00420 0.152 1
PF00208 -0.155 1
PF02787 0.141 1
PF00346 0.463 1
PF00499 -0.117 1
PF04898 0.429 1
PF11844 0.051 1
PF00310 0.186 1
PF02560 0.097 1
PF01208 -0.005 1
PF01645 0.166 1
PF06433 0.376 1
PF09723 -0.079 1
PF00988 0.159 1
PF00329 -0.030 1
PF03951 0.189 1
PF14691 -0.178 1
PF00507 -0.140 1
PF00296 0.491 1
PF00194 -0.061 1
PF00146 0.442 1
# Pfam entropy score: 10.369
# Pathway report
# path_number path_name total_domains matched %completeness matched_Pfam_domains
1 coB/coM regeneration 8 5 62.5 PF12838,PF01058,PF00374,PF00346,PF00329
2 methane oxidation 24 6 25.0 PF12838,PF00970,PF00175,PF01011,PF13360,PF09723
3 methanogenesis 52 19 36.5 PF00037,PF12838,PF13187,PF13484,PF00361,PF12800,PF01568,PF07969,PF00662,PF04060,PF04208,PF01493,PF00420,PF00499,PF01208,PF09723,PF00507,PF00296,PF00146
4 methanogenesis(methanol) 7 1 14.3 PF01208
5 methylamine degradation 13 10 76.9 PF07992,PF01266,PF13522,PF13510,PF00120,PF08669,PF01571,PF01493,PF01645,PF06433
6 mcrABC 5 0 0.0
# mean pathway completeness: 35.9
# Script to map these Pfam domains in KEGG->User Data Mapping.
# Colors are proportional to the number of Pfam matches and normalized with respect to the max.
# Note that a reference map must be selected first. For instance, Sulphur metabolism is:
# http://www.genome.jp/kegg-bin/show_pathway?map00920
# WARNING: note that several K numbers might map to the same protein.
# These cases are coloured in KEGG with the color of the last given K number.
# You might want to manually adjust the colors to correct this.
K00197 #2c7bb6,black
K00200 #2c7bb6,black
K00202 #2c7bb6,black
K00205 #d7191c,black
K00320 #2c7bb6,black
K00577 #2c7bb6,black
K01949 #2c7bb6,black
K14028 #2c7bb6,black
K14029 #2c7bb6,black
K14080 #2c7bb6,black
K15229 #2c7bb6,black
K16161 #abd9e9,black
K22158 #2c7bb6,black
K22159 #2c7bb6,black
K22160 #2c7bb6,black
K22161 #2c7bb6,black
K22163 #2c7bb6,black
K22164 #fdae61,black
K22165 #2c7bb6,black
K22166 #2c7bb6,black
K22167 #abd9e9,black
fmdB #2c7bb6,black
fmdF #fdae61,black