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%	122.1 / NA	39	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 (22/17);  total (22/17)

ACTGGAATATACGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAGCTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTATT  >  NC_000913/1425845‑1426115                                                                                                                                        |                                                                                                                                        aCTGGAATATACGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTg                                                                                                                                      <  1:256152/139‑1 (MQ=255)   tGGAATATACGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATGCGATAAAAAAGCCATAACTGcc                                                                                                                                    <  1:598863/139‑1 (MQ=255)        tataCGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCg                                                                                                                               <  2:526401/139‑1 (MQ=255)             ggCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCggtggt                                                                                                                          >  2:156073/1‑139 (MQ=255)               cAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTa                                                                                                                        >  2:85130/1‑139 (MQ=255)                  aaCGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTGCTGGCAGATCCTTGCAAAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCTGCGGTGGTTAGCg                                                                                                                     >  2:509047/1‑139 (MQ=255)                      aGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCGGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGt                                                                                                                 >  1:151823/1‑139 (MQ=255)                            cgcgCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCgggg                                                                                                           >  1:771525/1‑139 (MQ=255)                                ctgctTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGgaga                                                                                                       <  1:85130/139‑1 (MQ=255)                                             aTCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAg                                                                                          >  1:427326/1‑139 (MQ=255)                                                                  tCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGaaaaa                                                                     >  1:167540/1‑139 (MQ=255)                                                                  tCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGaaaaa                                                                     >  1:397674/1‑139 (MQ=255)                                                                       gCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAg                                                                >  1:260718/1‑139 (MQ=255)                                                                        cAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAgg                                                               <  1:156073/139‑1 (MQ=255)                                                                            agcagcCAGCATCGCCCACGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAGGGCAAGATGGAAGCGAGAAAAACTCAGATTGc                                                           >  1:507501/1‑139 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGcc                                                          >  2:667161/1‑139 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGcc                                                          >  2:640877/1‑139 (MQ=255)                                                                             gcagcCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGcc                                                          <  2:616539/139‑1 (MQ=255)                                                                                          cccAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGaa                                             >  1:577084/1‑139 (MQ=255)                                                                                           ccAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAAc                                            <  2:397674/139‑1 (MQ=255)                                                                                               ggTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAgg                                                               >  2:504606/1‑116 (MQ=255)                                                                                               ggTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAgg                                                               <  1:504606/116‑1 (MQ=255)                                                                                                    agagCAGCAGAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAg                                   >  2:88312/1‑139 (MQ=255)                                                                                                        cagcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGAccc                               <  2:260718/139‑1 (MQ=255)                                                                                                         agcagAAGCAGGATATGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCg                              >  1:542072/1‑139 (MQ=255)                                                                                                         agcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCg                              <  1:233317/139‑1 (MQ=255)                                                                                                         agcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCg                              >  2:441822/1‑139 (MQ=255)                                                                                                         agcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCg                              >  2:589/1‑139 (MQ=255)                                                                                                          gcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCgg                             <  2:577084/139‑1 (MQ=255)                                                                                                          gcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCg                              <  1:580933/138‑1 (MQ=255)                                                                                                          gcagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCg                              >  2:580933/1‑138 (MQ=255)                                                                                                           cagAAGCAGGATACGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGt                            <  2:72964/139‑1 (MQ=255)                                                                                                                  aGGATATGATAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAg                     <  2:542072/139‑1 (MQ=255)                                                                                                                      tACGCTAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGCAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAgt                 <  1:509047/139‑1 (MQ=255)                                                                                                                          aTAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGc                                                           <  2:54846/93‑1 (MQ=255)                                                                                                                          aTAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGc                                                           >  1:54846/1‑93 (MQ=255)                                                                                                                           tAAAAAAGCCATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGttgttg            >  2:4099/1‑139 (MQ=255)                                                                                                                                   ccATAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGACACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTa    >  1:379713/1‑139 (MQ=255)                                                                                                                                     aTAACTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTAtt  <  2:714500/139‑1 (MQ=255)                                                                                                                                        |                                                                                                                                        ACTGGAATATACGGCAGAACGAGGGATCGCGCTGCTTAAGCAGAATCCAGAGTTGTACTGGCAGATCCTTGCAGAAGCAGCCAGCATCGCCCAGGGTAAAGAGCAGCAGAAGCAGGATACGATAAAAAAGCCATAGCTGCCCAGCGGTGGTTATCGGAGTTCGGGGGAGAAAGGGGGGAAAAGGCAAGATGGAAGCGAGAAAAACTCAGGTTGCCACCGATACCGGAACCAGAAATAGACCCGGTGCTTAAGGAGTTGTTGTACGCCTATT  >  NC_000913/1425845‑1426115

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑