Francisella tularensis holarctica 275: Difference between revisions
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OLD PAGE: Error : Should be "Francisella tularensis holarctica 257" instead of "Francisella tularensis holarctica 275" | |||
Center: Broad | Center: Broad | ||
Status: Assembly (31 contigs) | Status: Assembly (31 contigs) | ||
| Line 60: | Line 62: | ||
/fs/szasmg2/Bacteria/F_tularensis_tularensis_257 | /fs/szasmg2/Bacteria/F_tularensis_tularensis_257 | ||
'''2007_0822_WGA''' | '''2007_0822_WGA -> best''' | ||
Only WGS reads | Only WGS reads | ||
| Line 71: | Line 73: | ||
OBT 27116 64 638 971 16274337 600.17 171.69 683 | OBT 27116 64 638 971 16274337 600.17 171.69 683 | ||
lib: G878A1 mean=4217 stdev=123 (smaller than original | lib: G878A1 mean=4217 stdev=123 (smaller than original values) | ||
=> 10 scaff, 33 contigs, 1,861,251 bp | => 10 scaff, 33 contigs, 1,861,251 bp | ||
'''2007_0822_AMOScmp-OBT''' | '''2007_0822_AMOScmp-OBT-454''' | ||
=> 26 scaff, 45 contigs, 1,848,389 bp | => 26 scaff, 45 contigs, 1,848,389 bp | ||
Latest revision as of 21:25, 15 January 2008
OLD PAGE: Error : Should be "Francisella tularensis holarctica 257" instead of "Francisella tularensis holarctica 275"
Center: Broad
Status: Assembly (31 contigs)
Data
Reference
Name Length %GC NZ_AAUD01000001.1 36812 31.84 NZ_AAUD01000002.1 115617 32.08 NZ_AAUD01000003.1 102890 32.92 NZ_AAUD01000004.1 10327 35.19 NZ_AAUD01000005.1 51099 32.65 NZ_AAUD01000006.1 20543 32.96 NZ_AAUD01000007.1 27261 32.36 NZ_AAUD01000008.1 31779 33.38 NZ_AAUD01000009.1 35088 32.87 NZ_AAUD01000010.1 6394 32.48 NZ_AAUD01000011.1 71129 32.23 NZ_AAUD01000012.1 33752 32.51 NZ_AAUD01000013.1 12799 30.66 NZ_AAUD01000014.1 69654 32.39 NZ_AAUD01000015.1 270437 31.82 NZ_AAUD01000016.1 3155 35.06 NZ_AAUD01000017.1 3610 30.28 NZ_AAUD01000018.1 3425 32.26 NZ_AAUD01000019.1 3601 34.35 NZ_AAUD01000020.1 6135 29.85 NZ_AAUD01000021.1 7998 32.42 NZ_AAUD01000022.1 6110 33.16 NZ_AAUD01000023.1 3321 31.95 NZ_AAUD01000024.1 245186 31.03 NZ_AAUD01000025.1 141312 30.64 NZ_AAUD01000026.1 103447 31.73 NZ_AAUD01000027.1 242782 32.10 NZ_AAUD01000028.1 67966 32.93 NZ_AAUD01000029.1 57895 33.98 NZ_AAUD01000030.1 77546 34.12 NZ_AAUD01000031.1 17171 32.39 Total 1886241
Libraries:
CENTER PROJECT STRAIN LIB TYPE SIZE STDEV COUNT LOCATION WIBR G878 275 G878A1 WGS 4,500 450 23,808 TA WIBR G878 275 G878A2 WGS 4,500 450 768 TA WIBR G878 275 G878A3 WGS 4,500 450 768 TA WIBR G878 275 G878A4 WGS 4,500 450 768 TA WIBR G878 275 G878A5 WGS 4,500 450 768 TA WIBR G878 275 G878A9 WGS 10,000 1,000 768 TA WIBR G878 275 G878A10 WGS 10,000 1,000 768 TA WIBR G878 275 G878A11 WGS 10,000 1,000 768 TA WIBR G878 275 G878A12 WGS 10,000 1,000 768 TA WIBR R95... 257 454-255 454 . . 901,724 TA Total 931,676
Assembly
Location
/fs/szasmg2/Bacteria/F_tularensis_tularensis_257
2007_0822_WGA -> best
Only WGS reads runCA-OBT.pl => new read clr, new library insert estimates
clr got shorter by runing OBT (usually is the opposite)
. #traces min median max sum mean stdev n50 CLIPPING 29397 0 908 1116 25713268 874.69 137.9 916 OBT 27116 64 638 971 16274337 600.17 171.69 683
lib: G878A1 mean=4217 stdev=123 (smaller than original values) => 10 scaff, 33 contigs, 1,861,251 bp
2007_0822_AMOScmp-OBT-454
=> 26 scaff, 45 contigs, 1,848,389 bp