- Add a function to calculate the value of the OA tag

[yfarjoun]

The OA tag can be used to record the previous ("Original") alignment information in a SAM record. This PR add a method that will construct the contents of the OA tag from a record, to make the creation of the OA tag easy and uniform.

[codecov-io]

Codecov Report

Merging #1354 into master will increase coverage by 1.237%. The diff coverage is 85%.

@@               Coverage Diff               @@
##              master     #1354       +/-   ##
===============================================
+ Coverage     67.848%   69.085%   +1.237%     
- Complexity      8283      9219      +936     
===============================================
  Files            563       570        +7     
  Lines          33706     36413     +2707     
  Branches        5657      6385      +728     
===============================================
+ Hits           22869     25156     +2287     
- Misses          8659      8962      +303     
- Partials        2178      2295      +117

Impacted Files	Coverage Δ	Complexity Δ
...c/main/java/htsjdk/samtools/util/SequenceUtil.java	70.588% <ø> (ø)	131 <0> (ø)	:arrow_down:
...main/java/htsjdk/samtools/SAMRecordSetBuilder.java	89.591% <100%> (+0.039%)	75 <0> (ø)	:arrow_down:
src/main/java/htsjdk/samtools/SAMUtils.java	60.145% <78.571%> (+0.645%)	130 <3> (+3)	:arrow_up:
...s/cram/encoding/external/ExternalLongEncoding.java	61.538% <0%> (-5.128%)	4% <0%> (+1%)
src/main/java/htsjdk/variant/bcf2/BCFVersion.java	93.103% <0%> (-1.633%)	12% <0%> (+5%)
src/main/java/htsjdk/samtools/SAMFileHeader.java	66.942% <0%> (-0.5%)	83% <0%> (+38%)
...dk/samtools/cram/structure/SubstitutionMatrix.java	91.026% <0%> (-0.279%)	30% <0%> (+15%)
...s/cram/encoding/external/ExternalByteEncoding.java	100% <0%> (ø)	10% <0%> (+4%)	:arrow_up:
...ram/encoding/external/ExternalIntegerEncoding.java	100% <0%> (ø)	10% <0%> (+4%)	:arrow_up:
...n/java/htsjdk/variant/vcf/VCFSampleHeaderLine.java	100% <0%> (ø)	1% <0%> (?)
... and 43 more