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Francisella tularensis holarctica 257 - Revision history
2026-05-07T09:15:20Z
Revision history for this page on the wiki
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https://wiki.umiacs.umd.edu/cbcb/index.php?title=Francisella_tularensis_holarctica_257&diff=2269&oldid=prev
Dpuiu at 21:26, 15 January 2008
2008-01-15T21:26:09Z
<p></p>
<p><b>New page</b></p><div>Center: Broad<br />
Status: Assembly (31 contigs)<br />
<br />
== Data == <br />
<br />
'''Reference'''<br />
<br />
Name Length %GC<br />
NZ_AAUD01000001.1 36812 31.84<br />
NZ_AAUD01000002.1 115617 32.08<br />
NZ_AAUD01000003.1 102890 32.92<br />
NZ_AAUD01000004.1 10327 35.19<br />
NZ_AAUD01000005.1 51099 32.65<br />
NZ_AAUD01000006.1 20543 32.96<br />
NZ_AAUD01000007.1 27261 32.36<br />
NZ_AAUD01000008.1 31779 33.38<br />
NZ_AAUD01000009.1 35088 32.87<br />
NZ_AAUD01000010.1 6394 32.48<br />
NZ_AAUD01000011.1 71129 32.23<br />
NZ_AAUD01000012.1 33752 32.51<br />
NZ_AAUD01000013.1 12799 30.66<br />
NZ_AAUD01000014.1 69654 32.39<br />
NZ_AAUD01000015.1 270437 31.82<br />
NZ_AAUD01000016.1 3155 35.06<br />
NZ_AAUD01000017.1 3610 30.28<br />
NZ_AAUD01000018.1 3425 32.26<br />
NZ_AAUD01000019.1 3601 34.35<br />
NZ_AAUD01000020.1 6135 29.85<br />
NZ_AAUD01000021.1 7998 32.42<br />
NZ_AAUD01000022.1 6110 33.16<br />
NZ_AAUD01000023.1 3321 31.95<br />
NZ_AAUD01000024.1 245186 31.03<br />
NZ_AAUD01000025.1 141312 30.64<br />
NZ_AAUD01000026.1 103447 31.73<br />
NZ_AAUD01000027.1 242782 32.10<br />
NZ_AAUD01000028.1 67966 32.93<br />
NZ_AAUD01000029.1 57895 33.98<br />
NZ_AAUD01000030.1 77546 34.12<br />
NZ_AAUD01000031.1 17171 32.39<br />
Total 1886241<br />
<br />
'''Libraries:'''<br />
<br />
CENTER PROJECT STRAIN LIB TYPE SIZE STDEV COUNT LOCATION<br />
WIBR G878 275 G878A1 WGS 4,500 450 23,808 TA<br />
WIBR G878 275 G878A2 WGS 4,500 450 768 TA<br />
WIBR G878 275 G878A3 WGS 4,500 450 768 TA<br />
WIBR G878 275 G878A4 WGS 4,500 450 768 TA<br />
WIBR G878 275 G878A5 WGS 4,500 450 768 TA<br />
WIBR G878 275 G878A9 WGS 10,000 1,000 768 TA<br />
WIBR G878 275 G878A10 WGS 10,000 1,000 768 TA<br />
WIBR G878 275 G878A11 WGS 10,000 1,000 768 TA<br />
WIBR G878 275 G878A12 WGS 10,000 1,000 768 TA<br />
WIBR R95... 257 454-255 454 . . 901,724 TA<br />
Total 931,676<br />
<br />
== Assembly ==<br />
<br />
'''Location'''<br />
/fs/szasmg2/Bacteria/F_tularensis_tularensis_257<br />
<br />
'''2007_0822_WGA -> best'''<br />
<br />
Only WGS reads<br />
runCA-OBT.pl => new read clr, new library insert estimates <br />
<br />
clr got shorter by runing OBT (usually is the opposite)<br />
<br />
. #traces min median max sum mean stdev n50<br />
CLIPPING 29397 0 908 1116 25713268 874.69 137.9 916<br />
OBT 27116 64 638 971 16274337 600.17 171.69 683<br />
<br />
lib: G878A1 mean=4217 stdev=123 (smaller than original values)<br />
=> 10 scaff, 33 contigs, 1,861,251 bp<br />
<br />
'''2007_0822_AMOScmp-OBT-454'''<br />
=> 26 scaff, 45 contigs, 1,848,389 bp</div>
Dpuiu