!ls /Volumes/web/whale/SeaStarRNASeq
3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R1.fastq.gz
3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R2.fastq.gz
3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R1.fastq.gz
3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R2.fastq.gz
3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R1.fastq.gz
3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R2.fastq.gz
3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R1.fastq.gz
3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R2.fastq.gz
3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R1.fastq.gz
3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R2.fastq.gz
3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R1.fastq.gz
3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R2.fastq.gz
download.sh
#variables
sr="/Volumes/web/whale/SeaStarRNASeq/"
go="/Volumes/web/cnidarian/"
!gzcat {sr}3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R1.fastq.gz > {go}3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R1.fastq
!gzcat {sr}3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R2.fastq.gz > {go}3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R2.fastq
!gzcat {sr}3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R1.fastq.gz > {go}3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R1.fastq
!gzcat {sr}3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R2.fastq.gz > {go}3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R2.fastq
!gzcat {sr}3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R1.fastq.gz > {go}3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R1.fastq
!gzcat {sr}3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R2.fastq.gz > {go}3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R2.fastq
!gzcat {sr}3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R1.fastq.gz > {go}3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R1.fastq
!gzcat {sr}3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R2.fastq.gz > {go}3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R2.fastq
!gzcat {sr}3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R1.fastq.gz > {go}3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R1.fastq
!gzcat {sr}3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R2.fastq.gz > {go}3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R2.fastq
!gzcat {sr}3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R1.fastq.gz > {go}3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R1.fastq
!gzcat {sr}3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R2.fastq.gz > {go}3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R2.fastq
!ls {go}3291*
/Volumes/web/cnidarian/3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R1.fastq /Volumes/web/cnidarian/3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R2.fastq /Volumes/web/cnidarian/3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R1.fastq /Volumes/web/cnidarian/3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R2.fastq /Volumes/web/cnidarian/3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R1.fastq /Volumes/web/cnidarian/3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R2.fastq /Volumes/web/cnidarian/3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R1.fastq /Volumes/web/cnidarian/3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R2.fastq /Volumes/web/cnidarian/3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R1.fastq /Volumes/web/cnidarian/3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R2.fastq /Volumes/web/cnidarian/3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R1.fastq /Volumes/web/cnidarian/3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R2.fastq
#more variables
s71="3291_5903_10007_H94MGADXX_V_CF71_ATCACG_"
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{s71}R1.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{s71}R1_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R1_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{s71}R1_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source GCCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGC 10191 0.1282133220070474 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGATCTCGTATGC 9013 0.11339286343337437 TruSeq Adapter, Index 1 (100% over 50bp) CCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCT 7985 0.1004595600261283 No Hit CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 7979 0.10038407381947122 No Hit >>END_MODULE
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{s71}R2.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{s71}R2_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10007_H94MGADXX_V_CF71_ATCACG_R2_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{s71}R2_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source GCCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGC 11609 0.14605322884700356 No Hit CCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCT 8572 0.10784462724407912 No Hit CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 7990 0.10052246519834253 No Hit >>END_MODULE
samp="3291_5903_10008_H94MGADXX_V_CF34_CGATGT_"
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R1.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R1_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R1_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R1_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 28097 0.28809762158735774 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 25507 0.2615405927262246 No Hit GATCCTTATCTGTCAAAACCGCTAATGTCCGTTCTAAGACCGTCTGGAGA 24623 0.2524763404045097 No Hit ACTAGTATGGCCCGGGGGATCCTTATCTGTCAAAACCGCTAATGTCCGTT 20542 0.2106310760098054 No Hit TCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAGGGTTATAAGC 19098 0.1958247633937914 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAG 18493 0.18962128754012905 No Hit CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 17594 0.1804032300319597 No Hit >>END_MODULE
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R2.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R2_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10008_H94MGADXX_V_CF34_CGATGT_R2_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R2_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source GATCCTTATCTGTCAAAACCGCTAATGTCCGTTCTAAGACCGTCTGGAGA 28726 0.2945471857393472 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 28110 0.2882309194156182 No Hit ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 25055 0.2569059297743975 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAG 20727 0.21252800664274346 No Hit CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 17970 0.18425861337241764 No Hit ACTAGTATGGCCCGGGGGATCCTTATCTGTCAAAACCGCTAATGTCCGTT 17860 0.18313070867175174 No Hit TCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAGGGTTATAAGC 15140 0.1552407015280135 No Hit GATCCTACGTTCCAAATGCAGCGAGCTCGTATAACCCTTTAAGAGTTGCT 10435 0.10699714137680455 No Hit >>END_MODULE
samp="3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_"
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R1.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R1_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R1_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R1_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source GCCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGC 128262 0.6639032585981921 No Hit CTTAGAAACTGCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGC 112448 0.5820476339278158 No Hit GTCCTTTCGTACTAAGAAAAGTATAACTTTCGTGGATAGAAACTGACCTG 103188 0.5341164916205131 No Hit CCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCT 97001 0.502091656042189 No Hit CTCTCCAAAAAAATTACGCTGTTATCCCTACGGTAACTTATTCCTTTGCT 50347 0.2606035876615302 No Hit CTTTGCTTAAAAGAAAAGCTTTAACGCTTTTATGCGAGTTAGATGCTATT 49274 0.2550495794870446 No Hit GCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGCAAACTTTTTT 46900 0.2427614011028614 No Hit CCCTACGGTAACTTATTCCTTTGCTCGCTATTTAGCGGATCACTTAATTT 41323 0.21389401658365764 No Hit CCTTTGCTTAAAAGAAAAGCTTTAACGCTTTTATGCGAGTTAGATGCTAT 41070 0.21258445081651423 No Hit CAAAAACATCGCCCCTTGCAAAATAATTAACGAATAAGGGGTCCTGCCTG 38083 0.19712329292537892 No Hit CTGCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGCAAACTTTT 37711 0.19519776539424322 No Hit CTCCGCGATTGCCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAA 37387 0.19352069302841535 No Hit CCCCAGTCTTGCCATTCATACCAGCCTCTAATTAAGAGGCAAATGATTAT 36717 0.19005267301266018 No Hit CCTCGATGTTGGATCGAGATTTCCTAGAGATGCAGCAGTTTCTAAGGGTT 36568 0.18928142677035045 No Hit CGAGAAGACCCTATCGAGCTTTAGTAAAATTGTTAGTAGCATGTAAATAT 35094 0.1816517827356891 No Hit CTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGCAAACTTTTTTA 31808 0.16464295621065705 No Hit CCCTTAGAAACTGCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTC 30840 0.15963244371028243 No Hit GCTACCTTTGCACGGTCAAAATACCGCGGCCGTTTAACTACGTCACTGGG 30693 0.1588715497665272 No Hit CCCCAGTCTTGCCATTCATACCAGCCTCTATTTAAGAGGCAAATGATTAT 29922 0.15488073867377014 No Hit CTCTGGTCCTTTCGTACTAAGAAAAGTATAACTTTCGTGGATAGAAACTG 29852 0.15451840822436289 No Hit GCCGAGTTCCTTTTTCTTATTTTATTAAAAAATTAATTACCTGAGTTGGA 29712 0.15379374732554837 No Hit GCTAAATAGCGAGCAAAGGAATAAGTTACCGTAGGGATAACAGCGTAATT 29680 0.15362811054867648 No Hit ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 29613 0.15328130854710098 No Hit GTCGCAAACTTTTTTATCAATATGAACTCTCCAAAAAAATTACGCTGTTA 29332 0.1518268106001947 No Hit ATTTTTGTGAAGAAGCAGAAATAAATTCGTAGGACGAGAAGACCCTATCG 28280 0.14638150156053137 No Hit GGGCGATGTTTTTGGTAAACAGGCGAAGTCAATATTTGCCGAGTTCCTTT 27695 0.14335345423334217 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 26467 0.13699714292088344 No Hit AGCTCATCAAGTTTCGGGACACAAAACACTTTTAGTAAAAGCTTGCTCAA 26349 0.13638635730616835 No Hit GAATAAGTTACCGTAGGGATAACAGCGTAATTTTTTTGGAGAGTTCATAT 25107 0.12995757990382817 No Hit ACCAGCTATAACTTGATGCGATTAGCATTTCACATCTAATGTATCCTCAA 24199 0.12525763636008833 No Hit GCTACTAACAATTTTACTAAAGCTCGATAGGGTCTTCTCGTCCTACGAAT 24176 0.12513858492671168 No Hit GCCCCGACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGC 23352 0.12087343792226055 No Hit CACCATTAACTAAAATTAATTTCTTAGAAAACCAGCTATAACTTGATGCG 23020 0.11915495636221471 No Hit CCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCTT 22836 0.11820254489520135 No Hit ATAAATTCGTAGGACGAGAAGACCCTATCGAGCTTTAGTAAAATTGTTAG 22425 0.11607514754225304 No Hit AGAAGACCCTATCGAGCTTTAGTAAAATTGTTAGTAGCATGTAAATATAA 21508 0.11132861865501799 No Hit AGATAACTTTGGTTGGGGCAATCGCGGAGAATATAAATCCTCCGCTAAAA 21403 0.1107851229809071 No Hit GCCGTTTAACTACGTCACTGGGCAGGCAGGACCCCTTATTCGTTAATTAT 20662 0.10694959636646742 No Hit CCCCGACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCT 20086 0.10396813438277346 No Hit TATAAATCCTCCGCTAAAAGTATTAAAAATTACTATTTTTAAATTAAGTG 19952 0.10327453037962242 No Hit GCTCGCTATTTAGCGGATCACTTAATTTAAAAATAGTAATTTTTAATACT 19899 0.10300019446792834 No Hit >>END_MODULE
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R2.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R2_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10009_H94MGADXX_V_CF26_TTAGGC_R2_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R2_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source GCCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGC 144086 0.745810644761341 No Hit CTTAGAAACTGCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGC 110876 0.5739107272639843 No Hit GTCCTTTCGTACTAAGAAAAGTATAACTTTCGTGGATAGAAACTGACCTG 107226 0.5550177824020345 No Hit CCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCT 106475 0.5511304942948224 No Hit GCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGCAAACTTTTTT 52790 0.2732489203458434 No Hit CTCTCCAAAAAAATTACGCTGTTATCCCTACGGTAACTTATTCCTTTGCT 50188 0.259780579926448 No Hit CTTTGCTTAAAAGAAAAGCTTTAACGCTTTTATGCGAGTTAGATGCTATT 47713 0.24696961046526286 No Hit CCCTACGGTAACTTATTCCTTTGCTCGCTATTTAGCGGATCACTTAATTT 41325 0.2139043688822121 No Hit CTGCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGCAAACTTTT 40795 0.21116100976527147 No Hit CCCCAGTCTTGCCATTCATACCAGCCTCTAATTAAGAGGCAAATGATTAT 40277 0.20847976443965777 No Hit CTCCGCGATTGCCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAA 39872 0.20638342398237294 No Hit CCTTTGCTTAAAAGAAAAGCTTTAACGCTTTTATGCGAGTTAGATGCTAT 39658 0.2052757280370422 No Hit GCCGAGTTCCTTTTTCTTATTTTATTAAAAAATTAATTACCTGAGTTGGA 35079 0.1815741404965304 No Hit CGAGAAGACCCTATCGAGCTTTAGTAAAATTGTTAGTAGCATGTAAATAT 33784 0.17487102718249617 No Hit CTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTCGCAAACTTTTTTA 33701 0.1744414067924847 No Hit CCTCGATGTTGGATCGAGATTTCCTAGAGATGCAGCAGTTTCTAAGGGTT 33497 0.17338547233992643 No Hit CCCCAGTCTTGCCATTCATACCAGCCTCTATTTAAGAGGCAAATGATTAT 33351 0.17262975454544843 No Hit GCTACCTTTGCACGGTCAAAATACCGCGGCCGTTTAACTACGTCACTGGG 32833 0.16994850921983473 No Hit CAAAAACATCGCCCCTTGCAAAATAATTAACGAATAAGGGGTCCTGCCTG 32242 0.16688940499698204 No Hit GGGCGATGTTTTTGGTAAACAGGCGAAGTCAATATTTGCCGAGTTCCTTT 31822 0.1647154223005385 No Hit CTCTGGTCCTTTCGTACTAAGAAAAGTATAACTTTCGTGGATAGAAACTG 31604 0.16358702175809878 No Hit GTCGCAAACTTTTTTATCAATATGAACTCTCCAAAAAAATTACGCTGTTA 30272 0.15669239092080642 No Hit CCCTTAGAAACTGCTGCATCTCTAGGAAATCTCGATCCAACATCGAGGTC 30037 0.1554759958406535 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 29748 0.15398008869952923 No Hit GCTAAATAGCGAGCAAAGGAATAAGTTACCGTAGGGATAACAGCGTAATT 27557 0.14263914563308214 No Hit ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 26141 0.13530971825650107 No Hit GCCCCGACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGC 25587 0.1324421315569065 No Hit CCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCTT 24892 0.1288447078092202 No Hit GAATAAGTTACCGTAGGGATAACAGCGTAATTTTTTTGGAGAGTTCATAT 24293 0.1257441943921495 No Hit AGCTCATCAAGTTTCGGGACACAAAACACTTTTAGTAAAAGCTTGCTCAA 23874 0.12357538784498322 No Hit ATTTTTGTGAAGAAGCAGAAATAAATTCGTAGGACGAGAAGACCCTATCG 23472 0.12149457583553014 No Hit GCCGTTTAACTACGTCACTGGGCAGGCAGGACCCCTTATTCGTTAATTAT 23254 0.1203661752930904 No Hit GCTACTAACAATTTTACTAAAGCTCGATAGGGTCTTCTCGTCCTACGAAT 22783 0.11792820898350728 No Hit ACCAGCTATAACTTGATGCGATTAGCATTTCACATCTAATGTATCCTCAA 22421 0.11605444294514404 No Hit CCCCGACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAGCT 22248 0.11515896912018041 No Hit CACCATTAACTAAAATTAATTTCTTAGAAAACCAGCTATAACTTGATGCG 21647 0.11204810340455523 No Hit AGATAACTTTGGTTGGGGCAATCGCGGAGAATATAAATCCTCCGCTAAAA 21627 0.11194458041901031 No Hit AGAAGACCCTATCGAGCTTTAGTAAAATTGTTAGTAGCATGTAAATATAA 20964 0.10851279344819588 No Hit CTGGGGTTAAGCTGTCTCTTTCTTAATACTTGAATTTTATATTTTTGTGA 20608 0.10667008430549613 No Hit CTTTCGTACTAAGAAAAGTATAACTTTCGTGGATAGAAACTGACCTGGCT 20137 0.10423211799591302 No Hit GGGCAGGCAGGACCCCTTATTCGTTAATTATTTTGCAAGGGGCGATGTTT 20055 0.10380767375517881 No Hit GCTCGCTATTTAGCGGATCACTTAATTTAAAAATAGTAATTTTTAATACT 19810 0.1025395171822534 No Hit CTGGTCCTTTCGTACTAAGAAAAGTATAACTTTCGTGGATAGAAACTGAC 19694 0.10193908386609281 No Hit TGCCCCAACCAAAGTTATCTTATTAACTAACTAAATATAAATTATTAAAG 19585 0.10137488359487294 No Hit AAAGTATTAAAAATTACTATTTTTAAATTAAGTGATCCGCTAAATAGCGA 19503 0.10095043935413872 No Hit >>END_MODULE
samp="3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_"
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R1.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R1_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R1_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R1_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 155891 0.672730828610568 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 139621 0.6025193950993715 No Hit GATCCTTATCTGTCAAAACCGCTAATGTCCGTTCTAAGACCGTCTGGAGA 77254 0.3333813204962494 No Hit GATCCTACGTTCCAAATGCAGCGAGCTCGTATAACCCTTTAAGAGTTGCT 74393 0.32103498298699723 No Hit ACTAGTATGGCCCGGGGGATCCTTATCTGTCAAAACCGCTAATGTCCGTT 66005 0.2848374719672113 No Hit TCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAGGGTTATAAGC 62344 0.26903882057910494 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAG 61587 0.2657720685712392 No Hit TCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCTAAAACTTCGA 47907 0.206737501242833 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGC 32998 0.1423993167180371 TruSeq Adapter, Index 4 (100% over 50bp) CTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAGGGTTATAAGCT 25885 0.11170393094267503 No Hit CTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCTAAAACTTCGAT 24597 0.10614570559771981 No Hit >>END_MODULE
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R2.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R2_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10010_H94MGADXX_HK_CF2_TGACCA_R2_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R2_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 156718 0.6762996580828334 No Hit ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 137922 0.5951875434991548 No Hit GATCCTTATCTGTCAAAACCGCTAATGTCCGTTCTAAGACCGTCTGGAGA 94192 0.40647543609628917 No Hit GATCCTACGTTCCAAATGCAGCGAGCTCGTATAACCCTTTAAGAGTTGCT 77393 0.33398116003270034 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAG 66861 0.2885314478175853 No Hit ACTAGTATGGCCCGGGGGATCCTTATCTGTCAAAACCGCTAATGTCCGTT 59600 0.25719738397463515 No Hit TCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAGGGTTATAAGC 47641 0.20558960687811398 No Hit TCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCTAAAACTTCGA 43031 0.1856956481512169 No Hit CTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCTAAAACTTCGAT 25938 0.1119326467371491 No Hit CTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAGGGTTATAAGCT 23441 0.10115711204277554 No Hit >>END_MODULE
samp="3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_"
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R1.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R1_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R1_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R1_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 127163 0.14611770420352194 No Hit >>END_MODULE
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R2.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R2_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10011_H94MGADXX_HK_CF35_ACAGTG_R2_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R2_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 126433 0.145278891623852 No Hit >>END_MODULE
samp="3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_"
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R1.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R1_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R1_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R1_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 32672 0.273339089807268 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 28987 0.24250980032576144 No Hit GATCCTTATCTGTCAAAACCGCTAATGTCCGTTCTAAGACCGTCTGGAGA 17944 0.1501223257682914 No Hit CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 17602 0.14726109998737547 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATATCTCGTATGC 17453 0.1460145425565086 TruSeq Adapter, Index 6 (100% over 50bp) TCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAGGGTTATAAGC 15369 0.12857947083888044 No Hit GATCCTACGTTCCAAATGCAGCGAGCTCGTATAACCCTTTAAGAGTTGCT 15221 0.1273412795652677 No Hit ACTAGTATGGCCCGGGGGATCCTTATCTGTCAAAACCGCTAATGTCCGTT 14291 0.11956075331891734 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAG 13584 0.11364588014024023 No Hit >>END_MODULE
!/Volumes/Bay3/Software/FastQC/fastqc \
{go}{samp}R2.fastq \
-q \
-o /Volumes/web/cnidarian/
!echo http://eagle.fish.washington.edu/cnidarian/{samp}R2_fastqc/fastqc_report.html
http://eagle.fish.washington.edu/cnidarian/3291_5903_10012_H94MGADXX_HK_CF70_GCCAAT_R2_fastqc/fastqc_report.html
!sed -n "/>>Overrepresented/,/>>END_MODULE/p" /Volumes/web/cnidarian/{samp}R2_fastqc/fastqc_data.txt
>>Overrepresented sequences warn #Sequence Count Percentage Possible Source ACTGGATGCATCTGCAGGATATCGCGGCCGCTCGACGTAGAACTCAATCT 32602 0.2727534587994782 No Hit ACTAGTATGGCCCGGGGGATCCTACGTTCCAAATGCAGCGAGCTCGTATA 28397 0.23757376754581874 No Hit GATCCTTATCTGTCAAAACCGCTAATGTCCGTTCTAAGACCGTCTGGAGA 22851 0.19117505941435728 No Hit CTCCTGTTCACTTTTCTTCCCCAATTCGAGGCTCTACACGCAAATGGCTG 18355 0.153560816399743 No Hit GATCCTACGTTCCAAATGCAGCGAGCTCGTATAACCCTTTAAGAGTTGCT 15827 0.13241117086127666 No Hit ACTGGATGCATCTGCAGGATATCGCGGCCGCCATCTGCCCTACGTTTGAG 14383 0.12033043978629822 No Hit ACTAGTATGGCCCGGGGGATCCTTATCTGTCAAAACCGCTAATGTCCGTT 13149 0.11000660173468924 No Hit >>END_MODULE