Confirmation sequencing

An automated method for determining differences between one or more template sequences and a corresponding reference sequence, comprising the computer implemented steps of:

• (a) verifying that a first read sequence corresponding to a portion of each of said one or more template sequences is substantially the same as a corresponding reference sequence, wherein said first read sequence is obtained by sequencing using a defined primer;
• (b) confirming that a second read sequence corresponding to a second portion of one or more verified template sequence is substantially the same as said corresponding reference sequence, wherein said second read sequence is obtained by sequencing using a reference sequence primer, and
• (c) identifying one or more differences between one or more verified template nucleotide sequences and said corresponding reference sequence.

A computer readable medium comprising instructions, which when executed on a processor, implement a method comprising the computer implemented steps:

• (a) verifying that one or more first read sequences corresponding to one or more first portions of each of said two or more template sequences is substantially the same as a corresponding reference sequence, wherein said first read sequences are obtained by sequencing using a defined primer, and
• (b) confirming that one or more second read sequences corresponding to second portions of one or more verified template sequences is substantially the same as said corresponding reference sequence, wherein said second read sequences are obtained using reference sequence primers.

An automated system for determining similarity between each of two or more template sequences and a corresponding reference sequence, comprising the computer implemented steps of:

• (a) a verification module to verify that one or more first read sequences corresponding to one or more first portions of each of said two or more template sequences is substantially the same as a corresponding reference sequence, wherein said first read sequences are obtained by sequencing using a defined primer, and
• (b) a confirmation sequencing module to confirm that one or more second read sequences corresponding to second portions of one or more verified template sequences is substantially the same as said corresponding reference sequence, wherein said second read sequences are obtained using reference sequence primers.