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  • nucacidhunter
    replied
    I do not know why oligo dT has been used in 1st strand synthesis. It is possible that dA20 oligo has hybridized to oligo T resulting in creating long stretches of T by joining that has been used as template by reverse transcriptase. Because of high primer concentration polyT artefact has been dominant species in the reactions and has ended up in final library.

    Leave a comment:

  • ntremblay
    replied
    Viral RNA was extracted from plasma samples using QIAamp Viral RNA Mini Kit (720uL of sample) using standard protocol.

    Double stranded cDNA synthesis was done using Maxima H Minus Double-Stranded cDNA Synthesis Kit (random hexamers, Oligo (dT) and HCV specific pan genomic primers dA20) following standard protocol cycling conditions.

    The dsCDNA was quantified by nanodrop and promega QuantiFluor® dsDNA System.

    I will inquired how the cDNA was prep for sequencing.

    Thanks,

    Nicolas

    Leave a comment:

  • nucacidhunter
    replied
    I do not know how the library has been prepped but I notice following:

    1- It is stranded (directional) library
    2- Probably RNA has been poly adenylated after extraction
    3- It contains some short fragments (below 100 base)
    4- RT reaction probably has been primed with polyT primer

    It is library prep issue and not the sequencing. If you would like help you need to give more info on extraction and library prep.

    Leave a comment:

  • ntremblay
    replied
    Code:
    @m02846:68:000000000-c39d4:1:1101:14422:2079 1:n:0:1
tttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttt
+
>>afggggegggggggggggggggggggggggfggggggggggggggfffffffffffffffffffffffffffffffffffffffffffffffffffabffffffffffffffffffffffffffffffffffffffffff
@m02846:68:000000000-c39d4:1:1101:14422:2079 2:n:0:1
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa
+
bffccecceggggggggggggggcegggggggggggggggggggggggg@?@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@?@??@<@@@@@@@@?@?@@??@@@@@@@@@@@???@@@@@?@@;;;=?;=@@@??@
@m02846:68:000000000-c39d4:1:1101:14218:2110 1:n:0:1
tttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttt
+
>>aggggfefgcfeggg?ee@egggegcc@@/<afc@@cdgcbf?9bdab;dffffffbffffba=affffaffbbfbfffaafffaf;fffdffffffbd=ddf-9>99b=9@==9-9@-9@bdf;bcff@dcbffa-;9=
M02846:68:000000000-C39D4:1:1101:14218:2110 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFAGGCEEEEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@??@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@;--@->-@99@;@
@M02846:68:000000000-C39D4:1:1101:13886:2230 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AGGGGGGGGEEFGGGGFE/@EEGGCCCDGGG?@DCGFFGGB??DGFFFFFF@D>DFFFAA;@FFDABFFAFA@DADDFFFFFFFFA=FBFAABCF;BDDDC-B;-B;FD;>-@FCAFAD--9@BDFAFFFFAFC-@D=@D
@M02846:68:000000000-C39D4:1:1101:13886:2230 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
DFFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@?@@@?@@@@
@M02846:68:000000000-C39D4:1:1101:12194:2260 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AFGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGFFGFGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAAFFFFFA=DFFFA;FF;AFFFFFFFFFFFAFF;;ADAFFAFCFFFFAC;C
@M02846:68:000000000-C39D4:1:1101:12194:2260 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:12722:2310 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AFGEEGAEGE0EFCEEEE@EG/EECCGGGCCCCCC@DCC@@BB@B?BBBBB;@B?;BB==BBBBBBBB?BBBBBBBB?B-9@B?B?@BBB?B?B?B;>BB@B>;-;BBB99B-B;BB--9@-99-B-;B--@;=>@;--@
@M02846:68:000000000-C39D4:1:1101:12722:2310 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@?@@@@@@@@@@@@@@@@@@=@@@@@@@@@@@?@?@@@@@@@@@??@@@@?@@@@@@@@@@@@@@@@@@?@@@@?@@@@@@@?@@@
@M02846:68:000000000-C39D4:1:1101:20711:2313 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AGGGGGGGGGGGGGGGGGGGCFGFGGGGCCGGGGGGGGGGGGGGGFAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFCAFFFFFFCFFFFFFFFFFFFFFFFFFAFFFFFAFFFFFF
@M02846:68:000000000-C39D4:1:1101:20711:2313 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@
@M02846:68:000000000-C39D4:1:1101:17123:2486 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTGTTTTGGTGGGGTTTTTTGTGACTTCGACACTGTTT
+
>BBGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFDFA=D----.0000://.-<..--.-...--</00000....-:0000
@M02846:68:000000000-C39D4:1:1101:17123:2486 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@<=@@@?@@?@@?@?@@?@;??-9@@;=->=@?;?=@<=;-9=@@-
@M02846:68:000000000-C39D4:1:1101:19948:2714 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATAATTTTAATATTTTCGGGTGGGCTATACAACTGCCTTTTTCCTTCTTTTCCT
+
>>AFFGGGGGCGGGG?GCEFGFGGGGGGGFGGGGGGGGGGCG@@@GG<FFFFFFFFFFFFFFFFFFFFFFFDFFFFFAFFFFAF---9.////9///////;///--..---.;.///////;/////;/9/://;/////;
@M02846:68:000000000-C39D4:1:1101:19948:2714 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAACAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAACAAACC
+
FFFGFGGGGGGGGGGGGEGGGGGGGGGGGGGGGGCGGGGGGGGGGAGAG@@@@@@@@@@@@?@@@@@@@@@@??@?@@@@=?@?@-@-9@?<@@--9A--;@-9-;A-=---9-99;@---9-9-;-;////----------
@M02846:68:000000000-C39D4:1:1101:14946:3025 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>AAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
@M02846:68:000000000-C39D4:1:1101:14946:3025 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:15839:3063 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
3>>FFGCEGGGGEGG?EEGCGCGGEECC?C@CCGGGGGGGGGGGGG@BBBB??B<BBBBBBB?;?BBBB?BBBBBB?BB-@BBBBB?B<BBBBBBBB-@;BB?BB;B??BB?>=?;B@B-BB-@??BBBBB?--BB?-BBB?
@M02846:68:000000000-C39D4:1:1101:15839:3063 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@?@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:10519:3107 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF;BFFFFFFFFAFAFFFF
@M02846:68:000000000-C39D4:1:1101:10519:3107 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFFGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@?@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@?@@@@@@@@@@@@@@@@@?@@@@@@@?@?@@@@@?@@@@
@M02846:68:000000000-C39D4:1:1101:14081:3115 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AGGGGGGGEGGGGGCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFAFFFFADFFFFFFFFFFFFFFFFFAFFFAFFFFFFFFFABFAFAFFFFFAF;DFFFFFFFAFAFFFAFFFAFFFFFFFFFAFFAFFAACFFACC
@M02846:68:000000000-C39D4:1:1101:14081:3115 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:10255:3290 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AFFGGFGGGFGGFGGGGCGGGGGGGGGGGGGGGGGGGGCG@GGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFAFFFACFFFFFFFFFAFFF
@M02846:68:000000000-C39D4:1:1101:10255:3290 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:20826:3326 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>AAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
@M02846:68:000000000-C39D4:1:1101:20826:3326 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:9032:3354 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFFFFFFFFAFFFFFFFAFFFFFFFFFFFFFFFFCAFF
@M02846:68:000000000-C39D4:1:1101:9032:3354 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:21178:3402 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
>>AFGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFAFFFFFFFFFFFFFFFFFFFFAAFFFFFFFFFFF;DACFFFFFFFFFFF-DFFFFAAFFAFFFFFFFFFBFF
@M02846:68:000000000-C39D4:1:1101:21178:3402 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:18043:3408 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
+
3>AEGGGGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFF-BBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFCFAA;BFFFFFFFFFFFFFFFFFFFFFFAAB;@B--;--;;-;
@M02846:68:000000000-C39D4:1:1101:18043:3408 2:N:0:1
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
+
BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@?@@@@@@?@?@@@@@@@@@@
@M02846:68:000000000-C39D4:1:1101:12925:3455 1:N:0:1
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTATACTTAATTTCTTTGAGTGTCTGAGTAATGTCTGACACAGCCACCTTATTATT
+
>>AFFEEEGGGGGGGGEGEEGGCGGCCGC@C@CCCGC@DCCDGGG@GBBBBBB?BBBBB??<BB-@?BBBBB?BB?B;B=BB;B->-9/////////////////.;///9//;///////////9/...9....///;9/9
    Last edited by GenoMax; 10-16-2018, 08:57 AM. Reason: Added [code] tags

    Leave a comment:

  • ntremblay
    replied
    Hi, here is the sequence from a few reads:

    @M02846:68:000000000-C39D4:1:1101:14422:2079 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AFGGGGEGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFABFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
    @M02846:68:000000000-C39D4:1:1101:14422:2079 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFFCCECCEGGGGGGGGGGGGGGCEGGGGGGGGGGGGGGGGGGGGGGGG@?@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@?@??@<@@@@@@@@?@?@@??@@@@@@@@@@@???@@@@@?@@;;;=?;=@@@??@
    @M02846:68:000000000-C39D4:1:1101:14218:2110 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AGGGGFEFGCFEGGG?EE@EGGGEGCC@@/<AFC@@CDGCBF?9BDAB;DFFFFFFBFFFFBA=AFFFFAFFBBFBFFFAAFFFAF;FFFDFFFFFFBD=DDF-9>99B=9@==9-9@-9@BDF;BCFF@DCBFFA-;9=
    @M02846:68:000000000-C39D4:1:1101:14218:2110 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGCEEEEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@??@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@;--@->-@99@;@
    @M02846:68:000000000-C39D4:1:1101:13886:2230 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AGGGGGGGGEEFGGGGFE/@EEGGCCCDGGG?@DCGFFGGB??DGFFFFFF@D>DFFFAA;@FFDABFFAFA@DADDFFFFFFFFA=FBFAABCF;BDDDC-B;-B;FD;>-@FCAFAD--9@BDFAFFFFAFC-@D=@D
    @M02846:68:000000000-C39D4:1:1101:13886:2230 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    DFFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@?@@@?@@@@
    @M02846:68:000000000-C39D4:1:1101:12194:2260 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AFGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGFFGFGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAAFFFFFA=DFFFA;FF;AFFFFFFFFFFFAFF;;ADAFFAFCFFFFAC;C
    @M02846:68:000000000-C39D4:1:1101:12194:2260 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:12722:2310 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AFGEEGAEGE0EFCEEEE@EG/EECCGGGCCCCCC@DCC@@BB@B?BBBBB;@B?;BB==BBBBBBBB?BBBBBBBB?B-9@B?B?@BBB?B?B?B;>BB@B>;-;BBB99B-B;BB--9@-99-B-;B--@;=>@;--@
    @M02846:68:000000000-C39D4:1:1101:12722:2310 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@?@@@@@@@@@@@@@@@@@@=@@@@@@@@@@@?@?@@@@@@@@@??@@@@?@@@@@@@@@@@@@@@@@@?@@@@?@@@@@@@?@@@
    @M02846:68:000000000-C39D4:1:1101:20711:2313 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AGGGGGGGGGGGGGGGGGGGCFGFGGGGCCGGGGGGGGGGGGGGGFAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFCAFFFFFFCFFFFFFFFFFFFFFFFFFAFFFFFAFFFFFF
    @M02846:68:000000000-C39D4:1:1101:20711:2313 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@
    @M02846:68:000000000-C39D4:1:1101:17123:2486 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTGTTTTGGTGGGGTTTTTTGTGACTTCGACACTGTTT
    +
    >BBGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFDFA=D----.0000://.-<..--.-...--</00000....-:0000
    @M02846:68:000000000-C39D4:1:1101:17123:2486 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@<=@@@?@@?@@?@?@@?@;??-9@@;=->=@?;?=@<=;-9=@@-
    @M02846:68:000000000-C39D4:1:1101:19948:2714 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATAATTTTAATATTTTCGGGTGGGCTATACAACTGCCTTTTTCCTTCTTTTCCT
    +
    >>AFFGGGGGCGGGG?GCEFGFGGGGGGGFGGGGGGGGGGCG@@@GG<FFFFFFFFFFFFFFFFFFFFFFFDFFFFFAFFFFAF---9.////9///////;///--..---.;.///////;/////;/9/://;/////;
    @M02846:68:000000000-C39D4:1:1101:19948:2714 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAACAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAACAAACC
    +
    FFFGFGGGGGGGGGGGGEGGGGGGGGGGGGGGGGCGGGGGGGGGGAGAG@@@@@@@@@@@@?@@@@@@@@@@??@?@@@@=?@?@-@-9@?<@@--9A--;@-9-;A-=---9-99;@---9-9-;-;////----------
    @M02846:68:000000000-C39D4:1:1101:14946:3025 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >AAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
    @M02846:68:000000000-C39D4:1:1101:14946:3025 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:15839:3063 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    3>>FFGCEGGGGEGG?EEGCGCGGEECC?C@CCGGGGGGGGGGGGG@BBBB??B<BBBBBBB?;?BBBB?BBBBBB?BB-@BBBBB?B<BBBBBBBB-@;BB?BB;B??BB?>=?;B@B-BB-@??BBBBB?--BB?-BBB?
    @M02846:68:000000000-C39D4:1:1101:15839:3063 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@?@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:10519:3107 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF;BFFFFFFFFAFAFFFF
    @M02846:68:000000000-C39D4:1:1101:10519:3107 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFFGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@?@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@?@@@@@@@@@@@@@@@@@?@@@@@@@?@?@@@@@?@@@@
    @M02846:68:000000000-C39D4:1:1101:14081:3115 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AGGGGGGGEGGGGGCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFAFFFFADFFFFFFFFFFFFFFFFFAFFFAFFFFFFFFFABFAFAFFFFFAF;DFFFFFFFAFAFFFAFFFAFFFFFFFFFAFFAFFAACFFACC
    @M02846:68:000000000-C39D4:1:1101:14081:3115 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:10255:3290 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AFFGGFGGGFGGFGGGGCGGGGGGGGGGGGGGGGGGGGCG@GGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFAFFFACFFFFFFFFFAFFF
    @M02846:68:000000000-C39D4:1:1101:10255:3290 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:20826:3326 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >AAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
    @M02846:68:000000000-C39D4:1:1101:20826:3326 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:9032:3354 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFFFFFFFFAFFFFFFFAFFFFFFFFFFFFFFFFCAFF
    @M02846:68:000000000-C39D4:1:1101:9032:3354 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:21178:3402 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AFGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFAFFFFFFFFFFFFFFFFFFFFAAFFFFFFFFFFF;DACFFFFFFFFFFF-DFFFFAAFFAFFFFFFFFFBFF
    @M02846:68:000000000-C39D4:1:1101:21178:3402 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:18043:3408 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    3>AEGGGGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFF-BBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFCFAA;BFFFFFFFFFFFFFFFFFFFFFFAAB;@B--;--;;-;
    @M02846:68:000000000-C39D4:1:1101:18043:3408 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@?@@@@@@?@?@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:12925:3455 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTATACTTAATTTCTTTGAGTGTCTGAGTAATGTCTGACACAGCCACCTTATTATT
    +
    >>AFFEEEGGGGGGGGEGEEGGCGGCCGC@C@CCCGC@DCCDGGG@GBBBBBB?BBBBB??<BB-@?BBBBB?BB?B;B=BB;B->-9/////////////////.;///9//;///////////9/...9....///;9/9
    @M02846:68:000000000-C39D4:1:1101:12925:3455 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGTA
    +
    DFFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@?@@@@<@@@?@@@@@@?@@@@@@<@?@@?;=@?@@??@;@@?@-@----------9---9-;--;------------9--//
    @M02846:68:000000000-C39D4:1:1101:23101:3568 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AFFEGGGCGG?EGGGGGGGEG?EGGGGCGC?D@CCGCCGGGGGGGFF=BFFF-DFBFAFFFFFFFFBFADFFFFFFFDAFFFFFFFF;D9D-@FFFFFFFADDADF;-99@DFFF=@D-B@BB=B9@DFFFFFFFFFA;@
    @M02846:68:000000000-C39D4:1:1101:23101:3568 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    CFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@?@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:8961:3608 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >AAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
    @M02846:68:000000000-C39D4:1:1101:8961:3608 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
    @M02846:68:000000000-C39D4:1:1101:8333:3768 1:N:0:1
    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
    +
    >>AFGAEGECECECE/>FEEGGGGGGGGGG@CC@@@C?CCGCGGGGG@@@<@@;@@>>@@?@@@@@@?@@?@@@?@?@@@;@@@;@@@;?--9>;@--9-@@->@@?-@@?@@@@@;@@?@???@-@@;-->@@@@@?@?@=
    @M02846:68:000000000-C39D4:1:1101:8333:3768 2:N:0:1
    AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    +
    BFAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@?@@@@@@@@@@@@@@@@<@@@??@@@@@@@@@@@?
    @M02846:68:000000000-C39D4:1:1101:17863:3914 1:N:0:1


    Thanks a lot to all,

    Nicolas

    Leave a comment:

  • nucacidhunter
    replied
    Could you post full sequence of few reads (both reads if sequenced paired end).

    Leave a comment:

  • ntremblay
    started a topic AAAAAA.. TTTTTTT.. heterodimers

    AAAAAA.. TTTTTTT.. heterodimers

    Good evening all,

    I have prepared (ds)cDNA from viral RNA extracted from plasma that was subsequently sequenced on a MiSEQ following standard library preparation.

    When I got the reads back, I only have TTTTTTTTTTTTTT or AAAAAAAAA sequences for 99.9% of my reads. Read have good phred score and are of the expected length (100 bp).

    Any ideas about why I might get such a result?

    Thanks!

    Nicolas
    Tags: None
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