Noi/NOTES/2012-1-2

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Revision as of 01:11, 4 January 2012 by >Noi (Created page with '= HL111-BSPP_UCLA (batch4) mapping = * Note: the libraries were allocated in HL111 run lane4 * Sequencing data is in genome-miner:'''/home/kunzhang/FreshReads/111209_SN1001''' ==…')
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HL111-BSPP_UCLA (batch4) mapping

  • Note: the libraries were allocated in HL111 run lane4
  • Sequencing data is in genome-miner:/home/kunzhang/FreshReads/111209_SN1001

Merge and trim 27bp from 5' end

less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx4.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx4.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0091-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx5.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx5.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0359-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx6.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx6.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0005-003a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx7.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx7.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0050-004
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx10.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx10.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0050-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx11.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx11.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0241-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx12.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx12.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0091-001a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx13.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx13.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0359-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx14.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx14.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0123-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx15.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx15.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0295-004
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx16.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx16.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0295-003a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx18.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx18.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0271-001a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx20.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx20.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0167-001a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx21.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx21.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0391-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx22.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx22.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0210-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx24.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx24.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0271-004
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx26.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx26.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0210-001
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx28.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx28.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0295-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx30.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx30.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0123-001a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx31.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx31.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0167-006
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx36.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx36.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0271-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx37.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx37.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0050-005a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx39.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx39.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0122-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx40.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx40.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0290-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx42.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx42.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0241-005
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx44.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx44.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0241-003a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx45.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx45.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0277-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx46.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx46.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0100-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx47.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx47.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0050-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx48.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx48.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0122-004
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx49.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx49.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0210-003a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx50.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx50.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0281-003a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx52.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx52.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0122-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx53.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx53.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0281-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx55.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx55.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0359-006
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx60.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx60.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0005-004
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx62.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx62.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0167-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx63.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx63.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0122-001a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx66.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx66.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0344-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx67.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx67.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0100-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx68.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx68.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0027-002
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx69.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx69.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0281-001
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx71.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx71.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0396-004
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx72.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx72.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0344-001a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx74.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx74.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0290-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx76.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx76.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0241-001
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx77.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx77.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0277-005
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx83.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx83.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0290-004a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx85.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx85.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0271-005
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx92.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx92.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0178-001a
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx95.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx95.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0344-003
less /home/kunzhang/FreshReads/111209_SN1001/s_4_1_Indx96.txt /home/kunzhang/FreshReads/111209_SN1001/s_4_2_Indx96.txt | /home/kunzhang/bin/trimFastq.pl 27 83 >./HL111_GK0123-004