Mercurial > repos > kkonganti > centrifuge_process
changeset 0:00fa638e833e
"planemo upload"
| author | kkonganti |
|---|---|
| date | Wed, 22 Jun 2022 16:13:46 -0400 |
| parents | |
| children | 48eebe68ec69 |
| files | FAL11127.centrifuge.kreport.txt FAL11127.centrifuge.output.txt FAL11127.centrifuge.report.txt FAL11127.process-centrifuge-bug-ids.txt centrifuge_process.xml process_centrifuge_output.py test-data/FAL11127.centrifuge.output.txt test-data/FAL11127.centrifuge.report.txt test-data/FAL11127.process-centrifuge-bug-ids.txt |
| diffstat | 9 files changed, 94219 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/FAL11127.centrifuge.kreport.txt Wed Jun 22 16:13:46 2022 -0400 @@ -0,0 +1,623 @@ + 0.08 19 19 U 0 unclassified + 99.92 23835 0 - 1 root + 99.92 23835 1 - 131567 cellular organisms + 99.91 23833 7 D 2 Bacteria + 99.78 23802 2 P 1224 Proteobacteria + 99.74 23791 2 C 1236 Gammaproteobacteria + 92.24 22004 18 O 91347 Enterobacterales + 91.76 21889 537 F 543 Enterobacteriaceae + 49.95 11916 117 G 561 Escherichia + 47.39 11304 9100 S 562 Escherichia coli + 4.61 1099 902 - 83334 Escherichia coli O157:H7 + 0.54 128 128 - 155864 Escherichia coli O157:H7 str. EDL933 + 0.22 53 53 - 1328859 Escherichia coli O157:H7 str. SS17 + 0.03 6 6 - 1330457 Escherichia coli O157:H7 str. SS52 + 0.02 4 4 - 386585 Escherichia coli O157:H7 str. Sakai + 0.02 4 4 - 1343836 Escherichia coli O157:H7 str. F8092B + 0.00 1 1 - 444450 Escherichia coli O157:H7 str. EC4115 + 0.00 1 1 - 544404 Escherichia coli O157:H7 str. TW14359 + 1.59 380 380 - 1045010 Escherichia coli O157 + 0.48 115 115 - 1055538 Escherichia coli O145 + 0.47 112 104 - 244320 Escherichia coli O55:H7 + 0.03 8 8 - 1048689 Escherichia coli O55:H7 str. RM12579 + 0.17 41 41 - 991919 Escherichia coli O145:NM + 0.13 30 26 - 930406 Escherichia coli O157:H16 + 0.02 4 4 - 1446608 Escherichia coli O157:H16 str. 98-3133 + 0.13 30 30 - 991915 Escherichia coli O121:H19 + 0.10 25 22 - 1078034 Escherichia coli O145:H28 + 0.01 2 2 - 1248823 Escherichia coli O145:H28 str. RM12581 + 0.00 1 1 - 1248903 Escherichia coli O145:H28 str. RM12761 + 0.09 21 10 - 83333 Escherichia coli K-12 + 0.05 11 11 - 511145 Escherichia coli str. K-12 substr. MG1655 + 0.09 21 21 - 2848144 Escherichia coli O158:H23 + 0.08 19 19 - 869729 Escherichia coli UM146 + 0.07 16 0 - 1446738 Escherichia coli O39:NM + 0.07 16 16 - 1446739 Escherichia coli O39:NM str. F8704-2 + 0.07 16 16 - 2861805 Escherichia coli O139:H1 + 0.06 14 14 - 1078032 Escherichia coli O45:H2 + 0.05 13 0 - 1055537 Escherichia coli O121 + 0.05 13 13 - 1055543 Escherichia coli O121 str. RM8352 + 0.05 13 13 - 2778655 Escherichia coli O167:H26 + 0.05 12 12 - 340186 Escherichia coli E110019 + 0.05 12 0 - 861906 Escherichia coli O44:H18 + 0.05 12 12 - 216592 Escherichia coli 042 + 0.05 11 11 - 2072463 Escherichia coli O78 + 0.05 11 11 - 2763104 Escherichia coli O150:H6 + 0.04 10 10 - 2491679 Escherichia coli O22:H8 + 0.03 8 0 - 1055536 Escherichia coli O103 + 0.03 8 8 - 1055540 Escherichia coli O103 str. RM8385 + 0.03 8 8 - 1329907 Escherichia coli APEC IMT5155 + 0.03 8 8 - 2027293 Escherichia coli O8:H8 + 0.03 7 7 - 168807 Escherichia coli O127:H6 + 0.03 7 7 - 481805 Escherichia coli ATCC 8739 + 0.03 7 7 - 696406 Escherichia coli UMNK88 + 0.03 6 6 - 2778657 Escherichia coli O9:H10 + 0.02 5 5 - 585057 Escherichia coli IAI39 + 0.02 5 5 - 1446746 Escherichia coli O6:H16 + 0.02 5 0 - 2233553 Escherichia coli O43 + 0.02 5 5 - 1055541 Escherichia coli O43 str. RM10042 + 0.02 5 5 - 2773707 Escherichia coli O19:H7 + 0.02 4 0 - 1603259 Escherichia coli O139:H28 + 0.02 4 4 - 331111 Escherichia coli O139:H28 str. E24377A + 0.02 4 4 - 2027295 Escherichia coli O8:H28 + 0.02 4 4 - 2048780 Escherichia coli O25:H16 + 0.02 4 4 - 2048781 Escherichia coli O27:H7 + 0.02 4 4 - 2773705 Escherichia coli O18ac:H14 + 0.02 4 4 - 2773706 Escherichia coli O68:H12 + 0.02 4 4 - 2810404 Escherichia coli O7:H4 + 0.01 3 3 - 199310 Escherichia coli CFT073 + 0.01 3 0 - 404399 Escherichia coli O26 + 0.01 2 2 - 1055533 Escherichia coli O26 str. RM8426 + 0.00 1 1 - 1055534 Escherichia coli O26 str. RM10386 + 0.01 3 0 - 1072458 Escherichia coli O7:K1 + 0.01 3 3 - 1072459 Escherichia coli O7:K1 str. CE10 + 0.01 3 3 - 1078021 Escherichia coli O113:H21 + 0.01 3 3 - 1392854 Escherichia coli M8 + 0.01 3 3 - 2778656 Escherichia coli O20:H12 + 0.01 3 3 - 2848145 Escherichia coli O170:H18 + 0.01 3 3 - 2861806 Escherichia coli O141:H4 + 0.01 2 0 - 168927 Escherichia coli O111:H- + 0.01 2 2 - 585396 Escherichia coli O111:H- str. 11128 + 0.01 2 2 - 244319 Escherichia coli O26:H11 + 0.01 2 2 - 331112 Escherichia coli HS + 0.01 2 2 - 431946 Escherichia coli SE15 + 0.01 2 2 - 439855 Escherichia coli SMS-3-5 + 0.01 2 2 - 585055 Escherichia coli 55989 + 0.01 2 2 - 741093 Escherichia coli Xuzhou21 + 0.01 2 2 - 745156 Escherichia coli 1303 + 0.01 2 2 - 1001989 Escherichia coli PCN033 + 0.01 2 0 - 1038927 Escherichia coli O104:H4 + 0.01 2 2 - 1048254 Escherichia coli O104:H4 str. C227-11 + 0.01 2 0 - 1055535 Escherichia coli O111 + 0.01 2 2 - 1055542 Escherichia coli O111 str. RM9322 + 0.01 2 0 - 1055539 Escherichia coli O91 + 0.01 2 2 - 1055545 Escherichia coli O91 str. RM7190 + 0.01 2 2 - 1274814 Escherichia coli APEC O78 + 0.01 2 2 - 1446701 Escherichia coli O169:H41 + 0.01 2 2 - 2592065 Escherichia coli O1:H42 + 0.01 2 2 - 2605619 Escherichia coli O16:H48 + 0.01 2 2 - 2605620 Escherichia coli O80:H26 + 0.01 2 2 - 2697517 Escherichia coli O84:H7 + 0.01 2 2 - 2810407 Escherichia coli O126:H45 + 0.00 1 1 - 316435 Escherichia coli Nissle 1917 + 0.00 1 1 - 409438 Escherichia coli SE11 + 0.00 1 1 - 469008 Escherichia coli BL21(DE3) + 0.00 1 1 - 566546 Escherichia coli W + 0.00 1 1 - 714962 Escherichia coli IHE3034 + 0.00 1 1 - 758831 Escherichia coli ECC-1470 + 0.00 1 1 - 941323 Escherichia coli VR50 + 0.00 1 1 - 1311757 Escherichia coli ACN001 + 0.00 1 1 - 1355101 Escherichia coli JJ1887 + 0.00 1 1 - 1358422 Escherichia coli PCN061 + 0.00 1 1 - 1954351 Escherichia coli APEC O2-211 + 0.00 1 1 - 2048775 Escherichia coli O114:H49 + 0.00 1 1 - 2048778 Escherichia coli O178:H19 + 0.00 1 1 - 2079157 Escherichia coli O2:H1 + 0.00 1 1 - 2491692 Escherichia coli O39:H21 + 0.00 1 1 - 2491878 Escherichia coli O4:H5 + 0.00 1 1 - 2778652 Escherichia coli O100:H21 + 0.00 1 1 - 2810405 Escherichia coli O89m:H10 + 0.00 1 1 - 2810406 Escherichia coli O89m:H9 + 0.00 1 1 - 2810409 Escherichia coli H20 + 0.00 1 1 - 2874051 Escherichia coli O99:H6 + 0.00 1 1 - 2874052 Escherichia coli O16:H6 + 0.99 236 236 S 564 Escherichia fergusonii + 0.55 132 128 S 208962 Escherichia albertii + 0.02 4 4 - 1440052 Escherichia albertii KF1 + 0.32 76 76 S 1499973 Escherichia marmotae + 0.21 51 0 - 2608889 unclassified Escherichia + 0.21 49 49 S 2044467 Escherichia sp. E4742 + 0.01 2 2 S 2725997 Escherichia sp. SCLE84 + 21.99 5245 76 G 547 Enterobacter + 20.58 4910 650 S 354276 Enterobacter cloacae complex + 11.39 2718 2718 S 208224 Enterobacter kobei + 3.18 759 656 S 158836 Enterobacter hormaechei + 0.26 63 63 - 1296536 Enterobacter hormaechei subsp. xiangfangensis + 0.13 31 31 - 1812934 Enterobacter hormaechei subsp. hoffmannii + 0.02 5 5 - 301105 Enterobacter hormaechei subsp. hormaechei + 0.02 4 4 - 299766 Enterobacter hormaechei subsp. steigerwaltii + 2.00 476 5 - 2757714 unclassified Enterobacter cloacae complex + 1.49 356 356 S 2912628 Enterobacter cloacae complex sp. ECL414 + 0.43 102 102 S 2027919 Enterobacter cloacae complex sp. + 0.02 5 5 S 2850492 Enterobacter cloacae complex sp. ECL78 + 0.02 5 5 S 2850493 Enterobacter cloacae complex sp. ECL112 + 0.00 1 1 S 2077137 Enterobacter cloacae complex sp. FDA-CDC-AR_0132 + 0.00 1 1 S 2850078 Enterobacter cloacae complex sp. ECL72 + 0.00 1 1 S 2912631 Enterobacter cloacae complex sp. ECL404 + 1.06 253 252 S 550 Enterobacter cloacae + 0.00 1 0 - 69219 Enterobacter cloacae subsp. dissolvens + 0.00 1 1 - 1104326 Enterobacter cloacae subsp. dissolvens SDM + 0.10 24 24 S 1812935 Enterobacter roggenkampii + 0.07 17 17 S 61645 Enterobacter asburiae + 0.04 10 10 S 299767 Enterobacter ludwigii + 0.01 2 2 S 69218 Enterobacter cancerogenus + 0.00 1 1 S 2071710 Enterobacter sichuanensis + 1.06 253 0 - 2608935 unclassified Enterobacter + 1.03 246 246 S 1827481 Enterobacter sp. ODB01 + 0.01 3 3 S 2894203 Enterobacter sp. AN-K1 + 0.01 2 2 S 2500132 Enterobacter sp. N18-03635 + 0.00 1 1 S 2051905 Enterobacter sp. CRENT-193 + 0.00 1 1 S 2831892 Enterobacter sp. JBIWA008 + 0.02 5 5 S 881260 Enterobacter bugandensis + 0.00 1 1 S 2478464 Enterobacter oligotrophicus + 12.34 2943 1 - 2890311 Klebsiella/Raoultella group + 12.30 2935 110 G 570 Klebsiella + 10.81 2579 2459 S 573 Klebsiella pneumoniae + 0.46 110 87 - 72407 Klebsiella pneumoniae subsp. pneumoniae + 0.07 16 16 - 1193292 Klebsiella pneumoniae subsp. pneumoniae 1084 + 0.01 3 3 - 272620 Klebsiella pneumoniae subsp. pneumoniae MGH 78578 + 0.01 2 2 - 1328324 Klebsiella pneumoniae subsp. pneumoniae KPNIH27 + 0.00 1 1 - 1125630 Klebsiella pneumoniae subsp. pneumoniae HS11286 + 0.00 1 1 - 1308539 Klebsiella pneumoniae subsp. pneumoniae ATCC 43816 + 0.01 3 3 - 1284798 Klebsiella pneumoniae DMC1097 + 0.01 2 2 - 1328373 Klebsiella pneumoniae MGH 39 + 0.00 1 1 - 574 Klebsiella pneumoniae subsp. ozaenae + 0.00 1 1 - 1244085 Klebsiella pneumoniae CG43 + 0.00 1 1 - 1284804 Klebsiella pneumoniae UHKPC07 + 0.00 1 1 - 1365186 Klebsiella pneumoniae KP-1 + 0.00 1 1 - 1420012 Klebsiella pneumoniae 30660/NJST258_1 + 0.42 99 82 S 244366 Klebsiella variicola + 0.05 12 12 - 2590157 Klebsiella variicola subsp. variicola + 0.02 4 4 - 2489014 Klebsiella variicola subsp. tropica + 0.00 1 1 - 640131 Klebsiella variicola At-22 + 0.29 69 64 S 1463165 Klebsiella quasipneumoniae + 0.02 5 5 - 1463164 Klebsiella quasipneumoniae subsp. similipneumoniae + 0.10 24 8 - 2608929 unclassified Klebsiella + 0.03 8 8 S 2897413 Klebsiella sp. KPN54798 + 0.03 7 7 S 2675717 Klebsiella sp. WP7-S18-CRE-03 + 0.00 1 1 S 2686364 Klebsiella sp. PCX + 0.06 15 15 S 2489010 Klebsiella africana + 0.05 13 13 S 548 Klebsiella aerogenes + 0.05 13 13 S 571 Klebsiella oxytoca + 0.03 7 7 S 2026240 Klebsiella quasivariicola + 0.02 4 4 S 1134687 Klebsiella michiganensis + 0.01 2 2 S 2058152 Klebsiella grimontii + 0.03 7 4 G 160674 Raoultella + 0.01 2 2 S 54291 Raoultella ornithinolytica + 0.00 1 1 S 575 Raoultella planticola + 2.88 688 4 G 620 Shigella + 1.21 288 286 S 622 Shigella dysenteriae + 0.01 2 2 - 300267 Shigella dysenteriae Sd197 + 1.01 242 186 S 623 Shigella flexneri + 0.11 26 26 - 424717 Shigella flexneri 3a + 0.05 13 11 - 42897 Shigella flexneri 2a + 0.00 1 1 - 198214 Shigella flexneri 2a str. 301 + 0.00 1 1 - 198215 Shigella flexneri 2a str. 2457T + 0.03 7 0 - 424718 Shigella flexneri 5a + 0.03 7 7 - 1086030 Shigella flexneri 5a str. M90T + 0.03 6 0 - 373383 Shigella flexneri 5 + 0.03 6 6 - 373384 Shigella flexneri 5 str. 8401 + 0.01 2 2 - 374923 Shigella flexneri 1a + 0.00 1 1 - 424720 Shigella flexneri Y + 0.00 1 1 - 591020 Shigella flexneri 2002017 + 0.49 117 107 S 621 Shigella boydii + 0.03 8 8 - 300268 Shigella boydii Sb227 + 0.01 2 2 - 344609 Shigella boydii CDC 3083-94 + 0.16 37 37 S 624 Shigella sonnei + 1.79 427 18 G 544 Citrobacter + 1.46 349 18 S 1344959 Citrobacter freundii complex + 0.55 132 132 S 1639133 Citrobacter portucalensis + 0.50 120 120 S 546 Citrobacter freundii + 0.17 41 41 S 133448 Citrobacter youngae + 0.13 32 0 - 2816438 unclassified Citrobacter freundii complex + 0.13 32 32 S 2077149 Citrobacter freundii complex sp. CFNIH9 + 0.01 3 3 S 67827 Citrobacter werkmanii + 0.01 2 2 S 57706 Citrobacter braakii + 0.00 1 1 S 67826 Citrobacter sedlakii + 0.18 44 32 - 2644389 unclassified Citrobacter + 0.01 3 3 S 184912 Citrobacter sp. TSA-1 + 0.01 3 3 S 2742624 Citrobacter sp. RHB25-C09 + 0.00 1 1 S 1573676 Citrobacter sp. R56 + 0.00 1 1 S 1920110 Citrobacter sp. CFNIH10 + 0.00 1 1 S 2742627 Citrobacter sp. RHB36-C18 + 0.00 1 1 S 2742655 Citrobacter sp. RHBSTW-00570 + 0.00 1 1 S 2742675 Citrobacter sp. RHBSTW-00986 + 0.00 1 1 S 2781952 Citrobacter sp. BDA59-3 + 0.02 4 4 S 35703 Citrobacter amalonaticus + 0.01 3 3 S 545 Citrobacter koseri + 0.01 3 2 S 67825 Citrobacter rodentium + 0.00 1 1 - 637910 Citrobacter rodentium ICC168 + 0.01 2 2 S 67824 Citrobacter farmeri + 0.00 1 1 S 1563222 Citrobacter pasteurii + 0.00 1 1 S 1748967 Citrobacter cronae + 0.00 1 1 S 2546350 Citrobacter arsenatis + 0.00 1 1 S 2562449 Citrobacter tructae + 0.27 65 2 G 590 Salmonella + 0.26 61 13 S 28901 Salmonella enterica + 0.18 44 0 - 59201 Salmonella enterica subsp. enterica + 0.05 11 11 - 58712 Salmonella enterica subsp. enterica serovar Anatum + 0.03 6 6 - 149387 Salmonella enterica subsp. enterica serovar Brandenburg + 0.03 6 0 - 189201 Salmonella enterica subsp. enterica serovar Cubana + 0.03 6 6 - 1271863 Salmonella enterica subsp. enterica serovar Cubana str. CFSAN002050 + 0.02 5 4 - 90371 Salmonella enterica subsp. enterica serovar Typhimurium + 0.00 1 1 - 990282 Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1 + 0.01 2 2 - 58096 Salmonella enterica subsp. enterica serovar Bareilly + 0.01 2 2 - 2583588 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- + 0.00 1 0 - 600 Salmonella enterica subsp. enterica serovar Thompson + 0.00 1 1 - 1064551 Salmonella enterica subsp. enterica serovar Thompson str. RM6836 + 0.00 1 0 - 57046 Salmonella enterica subsp. enterica serovar Paratyphi C + 0.00 1 1 - 476213 Salmonella enterica subsp. enterica serovar Paratyphi C str. RKS4594 + 0.00 1 1 - 70803 Salmonella enterica subsp. enterica serovar Minnesota + 0.00 1 1 - 115981 Salmonella enterica subsp. enterica serovar Montevideo + 0.00 1 0 - 149539 Salmonella enterica subsp. enterica serovar Enteritidis + 0.00 1 1 - 1243621 Salmonella enterica subsp. enterica serovar Enteritidis str. EC20110356 + 0.00 1 1 - 192953 Salmonella enterica subsp. enterica serovar Stanley + 0.00 1 0 - 192954 Salmonella enterica subsp. enterica serovar Mbandaka + 0.00 1 1 - 984237 Salmonella enterica subsp. enterica serovar Mbandaka str. ATCC 51958 + 0.00 1 1 - 286782 Salmonella enterica subsp. enterica serovar Stanleyville + 0.00 1 1 - 286783 Salmonella enterica subsp. enterica serovar Indiana + 0.00 1 1 - 913070 Salmonella enterica subsp. enterica serovar Gaminara + 0.00 1 0 - 913076 Salmonella enterica subsp. enterica serovar Johannesburg + 0.00 1 1 - 1242101 Salmonella enterica subsp. enterica serovar Johannesburg str. ST203 + 0.00 1 1 - 2564349 Salmonella enterica subsp. enterica serovar Dessau + 0.01 2 0 - 59204 Salmonella enterica subsp. diarizonae + 0.01 2 2 - 2339227 Salmonella enterica subsp. diarizonae serovar 61:k:1,5,(7) + 0.00 1 1 - 59202 Salmonella enterica subsp. salamae + 0.00 1 1 - 59203 Salmonella enterica subsp. arizonae + 0.01 2 2 S 54736 Salmonella bongori + 0.12 28 2 G 83654 Leclercia + 0.07 17 1 - 2627398 unclassified Leclercia + 0.03 7 7 S 1920114 Leclercia sp. LSNIH1 + 0.02 5 5 S 2681309 Leclercia sp. Colony189 + 0.01 2 2 S 1920116 Leclercia sp. LSNIH3 + 0.01 2 2 S 2815358 Leclercia sp. 4-9-1-25 + 0.04 9 9 S 83655 Leclercia adecarboxylata + 0.04 9 2 G 1330547 Kosakonia + 0.01 3 3 S 283686 Kosakonia radicincitans + 0.01 3 3 S 1158459 Kosakonia sacchari + 0.00 1 0 S 208223 Kosakonia cowanii + 0.00 1 1 - 1300165 Kosakonia cowanii JCM 10956 = DSM 18146 + 0.03 8 2 G 413496 Cronobacter + 0.02 5 2 S 28141 Cronobacter sakazakii + 0.01 2 2 - 290339 Cronobacter sakazakii ATCC BAA-894 + 0.00 1 1 - 1138308 Cronobacter sakazakii ES15 + 0.00 1 0 - 2649764 unclassified Cronobacter + 0.00 1 1 S 1906275 Cronobacter sp. JZ38 + 0.02 4 0 G 1330545 Lelliottia + 0.02 4 4 S 61646 Lelliottia amnigena + 0.02 4 0 G 1330546 Pluralibacter + 0.02 4 2 S 1334193 [Enterobacter] lignolyticus + 0.01 2 2 - 701347 [Enterobacter] lignolyticus SCF1 + 0.01 2 0 G 579 Kluyvera + 0.00 1 1 S 61648 Kluyvera intermedia + 0.00 1 0 - 2619995 unclassified Kluyvera + 0.00 1 1 S 2873269 Kluyvera sp. CRP + 0.01 2 0 G 702 Plesiomonas + 0.01 2 2 S 703 Plesiomonas shigelloides + 0.01 2 0 G 82976 Buttiauxella + 0.00 1 1 S 82977 Buttiauxella agrestis + 0.00 1 0 - 2634062 unclassified Buttiauxella + 0.00 1 1 S 2479367 Buttiauxella sp. 3AFRM03 + 0.01 2 0 G 158483 Cedecea + 0.01 2 2 S 158822 Cedecea neteri + 0.01 2 0 G 1504576 Pseudocitrobacter + 0.01 2 0 - 2638778 unclassified Pseudocitrobacter + 0.01 2 2 S 2891570 Pseudocitrobacter sp. G163CM + 0.00 1 0 G 158876 Yokenella + 0.00 1 1 S 158877 Yokenella regensburgei + 0.00 1 0 - 191675 Enterobacteriaceae incertae sedis + 0.00 1 0 - 84563 ant, tsetse, mealybug, aphid, etc. endosymbionts + 0.00 1 0 G 801 Candidatus Symbiopectobacterium + 0.00 1 0 - 2794573 unclassified Candidatus Symbiopectobacterium + 0.00 1 1 S 2871826 Candidatus Symbiopectobacterium sp. SyEd1 + 0.00 1 0 G 447792 Phytobacter + 0.00 1 1 S 1972431 Phytobacter ursingii + 0.00 1 0 G 1335483 Shimwellia + 0.00 1 1 S 563 Shimwellia blattae + 0.00 1 0 G 2726810 Scandinavium + 0.00 1 1 S 1851514 Scandinavium goeteborgense + 0.21 49 0 F 1903411 Yersiniaceae + 0.14 33 1 G 629 Yersinia + 0.08 20 20 S 631 Yersinia intermedia + 0.03 6 6 S 630 Yersinia enterocolitica + 0.02 4 4 S 29486 Yersinia ruckeri + 0.01 2 2 S 419257 Yersinia massiliensis + 0.06 14 3 G 613 Serratia + 0.03 6 6 S 615 Serratia marcescens + 0.00 1 1 S 47917 Serratia fonticola + 0.00 1 1 S 61652 Serratia rubidaea + 0.00 1 1 S 137545 Serratia quinivorans + 0.00 1 1 S 300181 Serratia ureilytica + 0.00 1 0 - 2647522 unclassified Serratia + 0.00 1 1 S 2448483 Serratia sp. 3ACOL1 + 0.00 1 0 G 34037 Rahnella + 0.00 1 1 S 1510570 Rahnella victoriana + 0.00 1 0 G 41201 Ewingella + 0.00 1 1 S 41202 Ewingella americana + 0.07 16 0 F 1903409 Erwiniaceae + 0.03 7 0 G 551 Erwinia + 0.01 2 2 S 65700 Erwinia tracheiphila + 0.01 2 2 S 182337 Erwinia billingiae + 0.01 2 0 - 2622719 unclassified Erwinia + 0.01 2 2 S 2675378 Erwinia sp. E602 + 0.00 1 1 S 1619313 Erwinia gerundensis + 0.02 5 0 G 2100764 Mixta + 0.01 2 2 S 1458355 Mixta theicola + 0.01 2 2 S 1615494 Mixta intestinalis + 0.00 1 1 S 665913 Mixta calida + 0.02 4 2 G 53335 Pantoea + 0.00 1 1 S 59814 Pantoea dispersa + 0.00 1 1 S 1891675 Pantoea alhagi + 0.06 14 0 F 1903410 Pectobacteriaceae + 0.03 8 0 G 122277 Pectobacterium + 0.02 4 4 S 554 Pectobacterium carotovorum + 0.01 2 2 S 2488639 Pectobacterium versatile + 0.00 1 1 S 180957 Pectobacterium brasiliense + 0.00 1 0 - 2627739 unclassified Pectobacterium + 0.00 1 1 S 2738983 Pectobacterium sp. PL64 + 0.02 5 1 G 204037 Dickeya + 0.00 1 1 S 204042 Dickeya zeae + 0.00 1 1 S 1089444 Dickeya solani + 0.00 1 1 S 1401087 Dickeya aquatica + 0.00 1 1 S 1778540 Dickeya fangzhongdai + 0.00 1 0 G 71655 Brenneria + 0.00 1 0 S 55210 Brenneria nigrifluens + 0.00 1 1 - 1121120 Brenneria nigrifluens DSM 30175 = ATCC 13028 + 0.04 10 0 F 1903414 Morganellaceae + 0.01 3 0 G 581 Morganella + 0.01 3 3 S 582 Morganella morganii + 0.01 3 1 G 583 Proteus + 0.01 2 1 S 584 Proteus mirabilis + 0.00 1 1 - 529507 Proteus mirabilis HI4320 + 0.01 3 0 G 626 Xenorhabdus + 0.01 2 1 S 40576 Xenorhabdus bovienii + 0.00 1 1 - 406818 Xenorhabdus bovienii SS-2004 + 0.00 1 1 S 290110 Xenorhabdus budapestensis + 0.00 1 0 G 586 Providencia + 0.00 1 1 S 126385 Providencia alcalifaciens + 0.03 7 1 F 1903412 Hafniaceae + 0.03 6 6 G 635 Edwardsiella + 0.00 1 0 F 1903416 Budviciaceae + 0.00 1 0 G 82980 Leminorella + 0.00 1 1 S 158841 Leminorella richardii + 4.90 1168 0 O 72274 Pseudomonadales + 4.90 1168 0 F 135621 Pseudomonadaceae + 4.90 1168 9 G 286 Pseudomonas + 3.99 952 2 - 196821 unclassified Pseudomonas + 3.87 922 922 S 2874628 Pseudomonas sp. p1(2021b) + 0.02 5 5 S 1649877 Pseudomonas sp. CCOS 191 + 0.02 4 4 S 1259844 Pseudomonas sp. FGI182 + 0.01 3 3 S 2745519 Pseudomonas sp. OE 28.3 + 0.00 1 1 S 69328 Pseudomonas sp. VLB120 + 0.00 1 1 S 658630 Pseudomonas sp. CMR5c + 0.00 1 1 S 1173283 Pseudomonas sp. R3-18-08 + 0.00 1 1 S 1207075 Pseudomonas sp. UW4 + 0.00 1 1 S 1636610 Pseudomonas sp. PONIH3 + 0.00 1 1 S 1736226 Pseudomonas sp. Leaf58 + 0.00 1 1 S 1827300 Pseudomonas sp. MYb193 + 0.00 1 1 S 2069256 Pseudomonas sp. XWY-1 + 0.00 1 1 S 2479393 Pseudomonas sp. LTGT-11-2Z + 0.00 1 1 S 2749999 Pseudomonas sp. RtIB026 + 0.00 1 1 S 2811422 Pseudomonas sp. PDNC002 + 0.00 1 1 S 2866278 Pseudomonas sp. S07E 245 + 0.00 1 1 S 2866592 Pseudomonas sp. Marseille-Q3773 + 0.00 1 1 S 2866626 Pseudomonas sp. 2hn + 0.00 1 1 S 2886360 Pseudomonas sp. HN2-3 + 0.00 1 1 S 2920387 Pseudomonas sp. LS.1a + 0.76 182 1 S 136845 Pseudomonas putida group + 0.75 178 170 S 303 Pseudomonas putida + 0.03 6 6 - 1215088 Pseudomonas putida HB3267 + 0.00 1 1 - 1042876 Pseudomonas putida S16 + 0.00 1 1 - 1384061 Pseudomonas putida S13.1.2 + 0.00 1 1 S 76759 Pseudomonas monteilii + 0.00 1 1 S 78327 Pseudomonas mosselii + 0.00 1 1 S 1940636 Pseudomonas shirazica + 0.04 9 0 S 136841 Pseudomonas aeruginosa group + 0.04 9 9 S 287 Pseudomonas aeruginosa + 0.01 3 0 S 136843 Pseudomonas fluorescens group + 0.00 1 1 S 294 Pseudomonas fluorescens + 0.00 1 1 S 76760 Pseudomonas rhodesiae + 0.00 1 0 S 380021 Pseudomonas protegens + 0.00 1 1 - 1420599 Pseudomonas protegens Cab57 + 0.01 2 1 S 312306 Pseudomonas entomophila + 0.00 1 1 - 384676 Pseudomonas entomophila L48 + 0.01 2 2 S 2842357 Pseudomonas muyukensis + 0.01 2 2 S 2894079 Pseudomonas oryziphila + 0.00 1 0 S 136842 Pseudomonas chlororaphis group + 0.00 1 1 S 587753 Pseudomonas chlororaphis + 0.00 1 0 S 136846 Pseudomonas stutzeri group + 0.00 1 0 S 578833 Pseudomonas stutzeri subgroup + 0.00 1 1 S 316 Pseudomonas stutzeri + 0.00 1 1 S 157782 Pseudomonas parafulva + 0.00 1 1 S 237609 Pseudomonas alkylphenolica + 0.00 1 1 S 485870 Pseudomonas anuradhapurensis + 0.00 1 1 S 1306993 Pseudomonas soli + 0.00 1 1 S 2842355 Pseudomonas fakonensis + 2.54 607 0 O 2887326 Moraxellales + 2.54 607 0 F 468 Moraxellaceae + 2.54 607 1 G 469 Acinetobacter + 2.51 598 1 S 909768 Acinetobacter calcoaceticus/baumannii complex + 2.44 583 571 S 470 Acinetobacter baumannii + 0.03 8 8 - 945556 Acinetobacter baumannii D1279779 + 0.01 3 3 - 1400867 Acinetobacter baumannii ZW85-1 + 0.00 1 1 - 400667 Acinetobacter baumannii ATCC 17978 + 0.03 7 6 S 48296 Acinetobacter pittii + 0.00 1 1 - 871585 Acinetobacter pittii PHEA-2 + 0.03 6 6 S 106654 Acinetobacter nosocomialis + 0.00 1 1 S 1530123 Acinetobacter seifertii + 0.02 5 0 - 196816 unclassified Acinetobacter + 0.02 5 5 S 2420300 Acinetobacter sp. FDAARGOS_493 + 0.01 2 2 S 134534 Acinetobacter gyllenbergii + 0.00 1 1 S 756892 Acinetobacter indicus + 0.01 3 0 O 135623 Vibrionales + 0.01 3 0 F 641 Vibrionaceae + 0.01 3 0 G 662 Vibrio + 0.00 1 1 S 1074311 Vibrio alfacsensis + 0.00 1 1 S 2572923 Vibrio taketomensis + 0.00 1 1 S 2662262 Vibrio algicola + 0.01 3 0 O 135624 Aeromonadales + 0.01 3 0 F 84642 Aeromonadaceae + 0.01 2 0 G 642 Aeromonas + 0.00 1 0 S 644 Aeromonas hydrophila + 0.00 1 1 - 1354302 Aeromonas hydrophila 4AK4 + 0.00 1 1 S 648 Aeromonas caviae + 0.00 1 0 G 225143 Oceanisphaera + 0.00 1 1 S 1903694 Oceanisphaera avium + 0.00 1 0 O 118969 Legionellales + 0.00 1 0 F 444 Legionellaceae + 0.00 1 0 G 445 Legionella + 0.00 1 1 S 446 Legionella pneumophila + 0.00 1 0 O 135618 Methylococcales + 0.00 1 0 F 403 Methylococcaceae + 0.00 1 1 G 2822410 Methylotuvimicrobium + 0.00 1 0 O 135619 Oceanospirillales + 0.00 1 0 F 224372 Alcanivoracaceae + 0.00 1 0 G 2025617 Ketobacter + 0.00 1 1 S 1917421 Ketobacter alkanivorans + 0.00 1 0 O 135625 Pasteurellales + 0.00 1 0 F 712 Pasteurellaceae + 0.00 1 0 G 745 Pasteurella + 0.00 1 1 S 747 Pasteurella multocida + 0.03 6 0 - 68525 delta/epsilon subdivisions + 0.02 5 0 C 28221 Deltaproteobacteria + 0.01 2 0 O 29 Myxococcales + 0.00 1 0 - 80811 Cystobacterineae + 0.00 1 0 F 31 Myxococcaceae + 0.00 1 0 G 32 Myxococcus + 0.00 1 1 S 34 Myxococcus xanthus + 0.00 1 0 - 80812 Sorangiineae + 0.00 1 0 F 1055686 Sandaracinaceae + 0.00 1 0 G 1055688 Sandaracinus + 0.00 1 1 S 927083 Sandaracinus amylolyticus + 0.01 2 0 O 213115 Desulfovibrionales + 0.01 2 0 F 194924 Desulfovibrionaceae + 0.01 2 0 G 872 Desulfovibrio + 0.00 1 1 S 876 Desulfovibrio desulfuricans + 0.00 1 1 S 44742 Desulfovibrio fairfieldensis + 0.00 1 0 O 69541 Desulfuromonadales + 0.00 1 0 F 213422 Geobacteraceae + 0.00 1 0 G 392332 Geoalkalibacter + 0.00 1 1 S 483547 Geoalkalibacter subterraneus + 0.00 1 0 C 29547 Epsilonproteobacteria + 0.00 1 0 O 213849 Campylobacterales + 0.00 1 0 F 72294 Campylobacteraceae + 0.00 1 0 G 194 Campylobacter + 0.00 1 1 S 204 Campylobacter showae + 0.01 2 1 C 28216 Betaproteobacteria + 0.00 1 0 O 206351 Neisseriales + 0.00 1 0 F 1499392 Chromobacteriaceae + 0.00 1 0 G 57739 Vogesella + 0.00 1 0 - 2684990 unclassified Vogesella + 0.00 1 1 S 2877939 Vogesella sp. XCS3 + 0.00 1 0 C 28211 Alphaproteobacteria + 0.00 1 0 O 204458 Caulobacterales + 0.00 1 0 F 76892 Caulobacteraceae + 0.00 1 0 G 75 Caulobacter + 0.00 1 1 S 1679497 Caulobacter flavus + 0.08 20 0 - 1783272 Terrabacteria group + 0.05 12 0 P 201174 Actinobacteria + 0.05 12 0 C 1760 Actinomycetia + 0.03 6 0 O 85010 Pseudonocardiales + 0.03 6 0 F 2070 Pseudonocardiaceae + 0.02 5 0 G 1813 Amycolatopsis + 0.02 5 0 - 2618356 unclassified Amycolatopsis + 0.02 5 5 S 2778070 Amycolatopsis sp. FDAARGOS 1241 + 0.00 1 0 G 1851 Saccharomonospora + 0.00 1 1 S 75294 Saccharomonospora xinjiangensis + 0.00 1 0 O 2037 Actinomycetales + 0.00 1 0 F 2049 Actinomycetaceae + 0.00 1 0 G 28263 Arcanobacterium + 0.00 1 0 - 2631020 unclassified Arcanobacterium + 0.00 1 1 S 2722751 Arcanobacterium sp. 2701 + 0.00 1 0 O 85006 Micrococcales + 0.00 1 0 F 85023 Microbacteriaceae + 0.00 1 0 G 96492 Frigoribacterium + 0.00 1 0 - 2627005 unclassified Frigoribacterium + 0.00 1 1 S 2596916 Frigoribacterium sp. NBH87 + 0.00 1 0 O 85007 Corynebacteriales + 0.00 1 0 F 85026 Gordoniaceae + 0.00 1 0 G 2053 Gordonia + 0.00 1 1 S 2054 Gordonia bronchialis + 0.00 1 0 O 85009 Propionibacteriales + 0.00 1 0 F 85015 Nocardioidaceae + 0.00 1 0 G 1839 Nocardioides + 0.00 1 1 S 160826 Nocardioides aquaticus + 0.00 1 0 O 85011 Streptomycetales + 0.00 1 0 F 2062 Streptomycetaceae + 0.00 1 0 G 1883 Streptomyces + 0.00 1 1 S 2686304 Streptomyces broussonetiae + 0.00 1 0 O 85012 Streptosporangiales + 0.00 1 0 F 2012 Thermomonosporaceae + 0.00 1 0 G 1988 Actinomadura + 0.00 1 0 - 2626254 unclassified Actinomadura + 0.00 1 1 S 1219491 Actinomadura sp. WMMB 499 + 0.03 7 0 P 1239 Firmicutes + 0.03 7 0 C 91061 Bacilli + 0.03 7 0 O 1385 Bacillales + 0.01 3 0 F 90964 Staphylococcaceae + 0.01 3 0 G 1279 Staphylococcus + 0.00 1 1 S 1280 Staphylococcus aureus + 0.00 1 1 S 29388 Staphylococcus capitis + 0.00 1 1 S 70255 Staphylococcus condimenti + 0.01 3 0 F 186822 Paenibacillaceae + 0.01 2 0 G 55080 Brevibacillus + 0.01 2 1 S 1465 Brevibacillus laterosporus + 0.00 1 1 - 1121121 Brevibacillus laterosporus DSM 25 + 0.00 1 0 G 44249 Paenibacillus + 0.00 1 1 S 1338368 Paenibacillus lentus + 0.00 1 0 F 186817 Bacillaceae + 0.00 1 0 G 400634 Lysinibacillus + 0.00 1 1 S 1421 Lysinibacillus sphaericus + 0.00 1 0 - 1798711 Cyanobacteria/Melainabacteria group + 0.00 1 0 P 1117 Cyanobacteria + 0.00 1 0 O 1890424 Synechococcales + 0.00 1 0 F 1890426 Synechococcaceae + 0.00 1 0 G 1129 Synechococcus + 0.00 1 0 - 2626047 unclassified Synechococcus + 0.00 1 1 S 1386941 Synechococcus sp. MVIR-18-1 + 0.02 4 0 - 1783270 FCB group + 0.02 4 0 - 68336 Bacteroidetes/Chlorobi group + 0.02 4 0 P 976 Bacteroidetes + 0.00 1 0 C 117743 Flavobacteriia + 0.00 1 0 O 200644 Flavobacteriales + 0.00 1 0 F 2762318 Weeksellaceae + 0.00 1 0 - 2782232 Chryseobacterium group + 0.00 1 0 G 59732 Chryseobacterium + 0.00 1 1 S 254 Chryseobacterium indoltheticum + 0.00 1 0 C 117747 Sphingobacteriia + 0.00 1 0 O 200666 Sphingobacteriales + 0.00 1 0 F 84566 Sphingobacteriaceae + 0.00 1 0 G 84567 Pedobacter + 0.00 1 0 - 2628915 unclassified Pedobacter + 0.00 1 1 S 1727164 Pedobacter sp. PACM 27299 + 0.00 1 0 C 768503 Cytophagia + 0.00 1 0 O 768507 Cytophagales + 0.00 1 0 F 1853232 Hymenobacteraceae + 0.00 1 0 G 89966 Hymenobacter + 0.00 1 0 - 2615202 unclassified Hymenobacter + 0.00 1 1 S 1484118 Hymenobacter sp. PAMC 26628 + 0.00 1 0 C 1937959 Saprospiria + 0.00 1 0 O 1936988 Saprospirales + 0.00 1 0 F 1937961 Haliscomenobacteraceae + 0.00 1 0 G 2349 Haliscomenobacter + 0.00 1 0 S 2350 Haliscomenobacter hydrossis + 0.00 1 1 - 760192 Haliscomenobacter hydrossis DSM 1100 + 0.00 1 0 D 2157 Archaea + 0.00 1 0 P 28890 Euryarchaeota + 0.00 1 0 - 2290931 Stenosarchaea group + 0.00 1 0 C 183963 Halobacteria + 0.00 1 0 O 1644060 Natrialbales + 0.00 1 0 F 1644061 Natrialbaceae + 0.00 1 0 G 121871 Haloterrigena + 0.00 1 0 S 62320 Haloterrigena turkmenica + 0.00 1 1 - 543526 Haloterrigena turkmenica DSM 5511
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/FAL11127.centrifuge.output.txt Wed Jun 22 16:13:46 2022 -0400 @@ -0,0 +1,34186 @@ +readID seqID taxID score 2ndBestScore hitLength queryLength numMatches +6d6112f4-79fa-4265-93ec-82a920857053 NZ_CP083746.1 2874628 64505 0 2435 6860 1 +fe7ac955-962e-433e-983d-27b8a6c1f543 NZ_LR134270.1 1499973 954 954 72 5771 5 +fe7ac955-962e-433e-983d-27b8a6c1f543 NZ_LR134340.1 1499973 954 954 72 5771 5 +fe7ac955-962e-433e-983d-27b8a6c1f543 NZ_CP058207.1 1499973 954 954 72 5771 5 +fe7ac955-962e-433e-983d-27b8a6c1f543 NZ_CP056165.1 1499973 954 954 72 5771 5 +fe7ac955-962e-433e-983d-27b8a6c1f543 NZ_CP058209.1 1499973 954 954 72 5771 5 +cc427a7b-19c0-485b-ac94-957d7a7c5343 NZ_CP041300.1 2592065 1781 0 89 5614 1 +ce1a3110-a6ce-43ce-92c0-00daed359264 NZ_CP026399.1 562 7466 7466 144 6667 2 +ce1a3110-a6ce-43ce-92c0-00daed359264 NZ_CP060075.1 562 7466 7466 144 6667 2 +8b3119cb-aa67-4bd8-88f0-7e57cbf11c68 NZ_CP083746.1 2874628 15749 0 836 7993 1 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1 +0e9123fe-556c-4306-be8b-55f35e0919ce NZ_CP054371.1 562 2209 2209 62 6388 2 +0e9123fe-556c-4306-be8b-55f35e0919ce NZ_CP084096.1 2072463 2209 2209 62 6388 2 +0ebc78fe-b284-4b54-9c48-d266ce67b77e NZ_CP027348.1 562 12405 0 212 5505 1 +d1ad2081-d3f4-4e4e-a25c-966b04217abd species 562 4096 0 79 6999 1 +fa9e67f6-81b3-47c4-a75e-d354aed45130 NZ_CP083746.1 2874628 57380 0 1777 7951 1 +e9541a89-a30a-493f-9bab-0f53a8863275 NZ_CP034792.1 562 14641 0 136 5100 1 +384af732-3eee-4f6b-b01b-45aecb27ac8a species 562 11720 0 158 4184 1 +09bcfba4-50c1-4910-9e8f-4c663f80fcbe species 562 11025 11025 120 4537 4 +09bcfba4-50c1-4910-9e8f-4c663f80fcbe NZ_CP010284.1 858307 11025 11025 120 4537 4 +09bcfba4-50c1-4910-9e8f-4c663f80fcbe NZ_CP013685.1 108619 11025 11025 120 4537 4 +09bcfba4-50c1-4910-9e8f-4c663f80fcbe NZ_CP010281.1 796732 11025 11025 120 4537 4 +5fe0fd72-cc68-4f9b-a3a9-478bfcae1e11 species 562 22801 0 166 5725 1 +2957cdb6-4f20-4ddf-9a1a-30cd5314af8c species 562 2825 0 105 7254 1 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2 +130f822a-acc5-4bb2-b46d-c7238360809d species 562 2297 2297 93 7593 2 +6829d2d3-3fad-4217-80e5-c674a24c3d6e NZ_CP031919.1 991919 1369 1369 52 4692 5 +6829d2d3-3fad-4217-80e5-c674a24c3d6e NZ_CP057104.1 564 1369 1369 52 4692 5 +6829d2d3-3fad-4217-80e5-c674a24c3d6e NZ_CP031353.1 1055538 1369 1369 52 4692 5 +6829d2d3-3fad-4217-80e5-c674a24c3d6e NZ_CP007491.1 562 1369 1369 52 4692 5 +6829d2d3-3fad-4217-80e5-c674a24c3d6e NZ_CP027597.1 562 1369 1369 52 4692 5 +85dcdcb7-0b45-446d-a21f-96d9072647fd NZ_CP089035.1 83334 32075 0 959 15824 1 +207629a0-34f3-4dcf-930d-dd0f6313e425 NC_017632.1 869729 484 0 37 4211 1 +1398261e-9a73-4faa-bc60-210b757edb77 NZ_CP062700.1 83334 3136 3136 71 12436 2 +1398261e-9a73-4faa-bc60-210b757edb77 NZ_CP062778.1 83334 3136 3136 71 12436 2 +8cd522c6-41f7-4655-96e5-5ac1c8a90056 NC_020547.2 945556 49304 0 610 5580 1 +c75a5117-85db-467e-9579-55d128ca2820 NZ_CP059481.1 208224 10428 9680 419 4918 1 +bae3350c-f808-4c2f-8aba-ca14b2d13856 NZ_AP022431.1 208224 49506 0 623 15989 1 +a2b6b253-9de5-4477-a65a-a205bf9948b8 NZ_CP078020.1 546 63273 0 1182 10954 1 +efbcdb2a-38c3-435a-bce8-b5af8b549124 NZ_CP053258.1 562 2601 0 66 4721 1 +c754036a-6f73-4e20-b443-c41d3cfaa38d species 562 10457 0 147 4134 1 +e089a320-93df-4841-b7a9-fb2542bf7e63 NZ_CP026878.1 622 3332 0 100 6451 1 +225dd622-c2e3-494a-b31e-2f12f858518e NZ_CP060073.1 562 13410 0 243 4868 1 +5a946a27-a116-41f0-99f9-e45574650a69 NZ_CP027701.1 562 2916 2916 69 5775 2 +5a946a27-a116-41f0-99f9-e45574650a69 NZ_CP024273.1 562 2916 2916 69 5775 2 +a9c7b533-2547-4113-96a4-1e37591a4fd0 NZ_CP017249.1 562 16740 0 352 12435 1 +1b9b121f-fb82-4e99-9e3a-d1edb49f2235 NZ_CP086285.1 573 33361 0 290 10676 1 +6cfa2632-ee04-4872-a53a-8937db3a721a NC_018405.1 208224 69913 0 1402 5247 1 +0cd1a77c-934c-48ac-bec2-3fbfd2787db6 NZ_AP022055.1 303 220846 0 6032 13244 1 +bdb7798c-502e-4d91-90a5-5e1548e8a454 species 573 5929 0 92 4662 1 +cde610e1-2c2b-417e-961d-01c0a94d0fb2 NZ_CP032897.1 208224 25020 0 478 11932 1 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