SamReadViewer

A small utility to visualise read alignment directly from sam format without reference.

View the Project on GitHub Juke34/SamReadViewer

De-novo representation of a read alignment from SAM format

This utility makes it easy to visualise a read alignment against its reference without the reference. Indeed the reference is re-created based on the CIGAR string + the MD tag.

Select alignment type:
aln lastz-cigar maf

Enter a read in SAM format in the box below:




Need a read for testing? Try this one:
D00118:252:C86N9ANXX:2:2307:2348:68874	1171	scaffold1	8697	60	125M	=	8521	-302	TAAATATGAGTCTGAAGGTGGCTTGAAGGAAAGCATCGGTGCCTGATTCCGGGAACTTTTCCATTGATATTGAGAAGTTTGAATTTGCTAAAAAAAAAGTCAAATTTCCAGACTCTAGGGAAAAA	=G@D///C/C0;0@@=BD8@C<F8@D<;00>C.<.</G@0<>0=00C<</@C=111<=E1EBC1<1E:1@::1=1E1>111@>GE1?10E</<1CFE=1:>1GD@E1F;FB@111;EGBBBBBCB	AS:i:-21	XN:i:0	XM:i:7	XO:i:0	XG:i:0	NM:i:7	MD:Z:28A0G24G19T16C1C7G23	YS:i:-1	YT:Z:CP	NH:i:1