Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,595,427	A→G	pseudogene (2561/3861 nt)	yneO ←	pseudogene, AidA homolog

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,595,427	0	A	G	100.0%	160.5 / NA	42	pseudogene (2561/3861 nt)	yneO	pseudogene, AidA homolog
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (18/24);  total (18/24)

GTTTGCGCCTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTACCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGC  >  NC_000913/1595292‑1595557                                                                                                                                        |                                                                                                                                   gTTTGCGCCTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCt                                                                                                                                 <  2:715477/139‑1 (MQ=255)      cgcCTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAg                                                                                                                            >  1:625434/1‑139 (MQ=255)        ccTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGtt                                                                                                                          >  2:1124987/1‑139 (MQ=255)             aCCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGc                                                                                                                     <  2:2996/139‑1 (MQ=255)                     aaCGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAg                                                                                                             <  2:660070/139‑1 (MQ=255)                               tGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCAc                                                                                                   >  2:115/1‑139 (MQ=255)                                  cTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCcg                                                                                                <  1:115/139‑1 (MQ=255)                                    aTCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCcgcg                                                                                              <  1:904903/139‑1 (MQ=255)                                               ccAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAg                                                                                   >  2:685079/1‑139 (MQ=255)                                                       ttGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGa                                                                           >  1:624277/1‑139 (MQ=255)                                                         gAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACg                                                                         <  1:1093067/139‑1 (MQ=255)                                                          aGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGc                                                                        >  1:646437/1‑139 (MQ=255)                                                                          tATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCcgc                                                        >  1:825962/1‑139 (MQ=255)                                                                            ttCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGa                                                      >  2:1136149/1‑139 (MQ=255)                                                                             tCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAg                                                     <  2:624277/139‑1 (MQ=255)                                                                                ccATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGt                                                  <  1:685079/139‑1 (MQ=255)                                                                                ccATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGt                                                  <  2:625434/139‑1 (MQ=255)                                                                                ccATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGt                                                  <  1:1205142/139‑1 (MQ=255)                                                                                ccATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGt                                                  <  2:298181/139‑1 (MQ=255)                                                                                   tGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCgc                                               <  1:1191687/139‑1 (MQ=255)                                                                                      gATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCgcagc                                            >  2:950996/1‑139 (MQ=255)                                                                                           ttCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATc                                                                             >  2:95182/1‑101 (MQ=255)                                                                                           ttCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATc                                                                             <  1:95182/101‑1 (MQ=255)                                                                                           ttCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCATCGCAGCAGGaa                                       <  1:206878/139‑1 (MQ=255)                                                                                                 ggTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCg                                                >  1:1008395/1‑124 (MQ=255)                                                                                                 ggTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCg                                                <  2:1008395/124‑1 (MQ=255)                                                                                                     tAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATc                             >  1:443431/1‑139 (MQ=255)                                                                                                     tAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATc                             >  2:1185148/1‑139 (MQ=255)                                                                                                     tAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATc                             >  1:980830/1‑139 (MQ=255)                                                                                                        gCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGaa                          <  2:646437/139‑1 (MQ=255)                                                                                                           cGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAat                       <  1:1185148/139‑1 (MQ=255)                                                                                                            gTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAatg                      >  2:341170/1‑139 (MQ=255)                                                                                                                aTAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATgg                  <  1:1124987/139‑1 (MQ=255)                                                                                                                      aCGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTc            <  2:825962/139‑1 (MQ=255)                                                                                                                         tCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCAt         >  1:170090/1‑139 (MQ=255)                                                                                                                              cgtcccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATg    >  2:185881/1‑139 (MQ=255)                                                                                                                              cgtcccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATg    <  2:443431/139‑1 (MQ=255)                                                                                                                                tcccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGc  <  2:727555/139‑1 (MQ=255)                                                                                                                                tcccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGc  <  1:950996/139‑1 (MQ=255)                                                                                                                                tcccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGc  <  2:980830/139‑1 (MQ=255)                                                                                                                                 cccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGc                                                                        >  2:486499/1‑68 (MQ=255)                                                                                                                                 cccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGc                                                                        <  1:486499/68‑1 (MQ=255)                                                                                                                                        |                                                                                                                                   GTTTGCGCCTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTACCTGATAGTTACGGCCTTTCCAGGTGTAGTCACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGC  >  NC_000913/1595292‑1595557

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑