Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,425,980	G→A	pseudogene (351/453 nt)	ydaY →	pseudogene, Rac prophage,Phage or Prophage Related

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,425,980	0	G	A	100.0%	142.0 / NA	46	pseudogene (351/453 nt)	ydaY	pseudogene, Rac prophage,Phage or Prophage Related
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (19/27);  total (19/27)

ACTGGAATATACGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAGCTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTATT  >  NC_000913/1425845‑1426115                                                                                                                                        |                                                                                                                                        aCTGGAATATATGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTg                                                                                                                                      <  1:643383/139‑1 (MQ=255)        tataCGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCg                                                                                                                               <  2:1380536/139‑1 (MQ=255)        tataCGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCg                                                                                                                               <  1:604748/139‑1 (MQ=255)          taCGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGc                                                                                                                                     >  2:605183/1‑131 (MQ=255)          taCGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGc                                                                                                                                     <  1:605183/131‑1 (MQ=255)             ggCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCggtggt                                                                                                                          <  2:623001/139‑1 (MQ=255)                aGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTAt                                                                                                                       <  2:283705/139‑1 (MQ=255)                 gAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATc                                                                                                                      <  1:320897/139‑1 (MQ=255)                  aaCGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCg                                                                                                                     <  1:1699626/139‑1 (MQ=255)                    cGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTAt                                                                                                                       <  1:1655174/135‑1 (MQ=255)                    cGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTAt                                                                                                                       >  2:1655174/1‑135 (MQ=255)                         gATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCg                                                                                                              >  2:1033136/1‑139 (MQ=255)                                             aTCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCGAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAggggggg                                                                                              <  2:865993/135‑2 (MQ=255)                                             aTCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCGAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAggggggg                                                                                              >  1:865993/1‑134 (MQ=255)                                             aTCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAg                                                                                          >  1:106859/1‑139 (MQ=255)                                                    gTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCggg                                                                                                            >  1:372015/1‑114 (MQ=255)                                                    gTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCggg                                                                                                            <  2:372015/114‑1 (MQ=255)                                                                  tCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCggt                                                                                                                             >  2:1669509/1‑83 (MQ=255)                                                                  tCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCggt                                                                                                                             <  1:1669509/83‑1 (MQ=255)                                                                    cTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACt                                                                   <  2:1715541/139‑1 (MQ=255)                                                                       gCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGcc                                                                                                                                    >  2:1767948/1‑71 (MQ=255)                                                                       gCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGcc                                                                                                                                    <  1:1767948/71‑1 (MQ=255)                                                                          gAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGtt                                                             <  1:1555908/139‑1 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCggtgg                                                                                                                           >  2:875021/1‑74 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCggtgg                                                                                                                           <  1:875021/74‑1 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGcc                                                          >  1:293302/1‑139 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGcc                                                          >  1:488727/1‑139 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGcc                                                          >  2:944672/1‑139 (MQ=255)                                                                                gccagcATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCg                                                                                                                               >  1:550783/1‑67 (MQ=255)                                                                                gccagcATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCg                                                                                                                               <  2:550783/67‑1 (MQ=255)                                                                                   agcATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGtt                                                             <  1:786218/130‑1 (MQ=255)                                                                                   agcATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGtt                                                             >  2:786218/1‑130 (MQ=255)                                                                                           ccAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAAc                                            <  1:164006/139‑1 (MQ=255)                                                                                               ggTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCg                                                                                                                               >  2:1678605/1‑52 (MQ=255)                                                                                               ggTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCg                                                                                                                               <  1:1678605/52‑1 (MQ=255)                                                                                                    agagCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAgg                                                                                                   >  1:593986/1‑75 (MQ=255)                                                                                                    agagCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAgg                                                                                                   <  2:593986/75‑1 (MQ=255)                                                                                                        cagcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGAccc                               >  2:1221504/1‑139 (MQ=255)                                                                                                         agcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCAcc                                                       >  1:987249/1‑114 (MQ=255)                                                                                                         agcagAAGCAGGAAACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCAcc                                                       <  2:987249/114‑1 (MQ=255)                                                                                                                         gATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAAc                                            >  2:1560250/1‑109 (MQ=255)                                                                                                                         gATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAAc                                            <  1:1560250/109‑1 (MQ=255)                                                                                                                           tAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGttgttg            <  2:1629089/139‑1 (MQ=255)                                                                                                                                aaGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGACACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGc       <  2:106859/139‑1 (MQ=255)                                                                                                                                   ccATAACTGCCCAGCGGGGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTa    <  1:660638/139‑1 (MQ=255)                                                                                                                                     aTAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGGAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTAtt  <  2:1801060/139‑1 (MQ=255)                                                                                                                                        |                                                                                                                                        ACTGGAATATACGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAGCTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTATT  >  NC_000913/1425845‑1426115

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑