Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP025268	2,788,551	T→C	pseudogene (483/1374 nt)	CXP41_RS24250 ←	DUF5507 domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP025268	2,788,551	0	T	C	100.0%	165.0 / NA	49	pseudogene (483/1374 nt)	CXP41_RS24250	DUF5507 domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (21/28);  total (21/28)

ATCTATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTTTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCATTGTTTTCCAGCTTTAGTTTAATGAGAAGATTTTCCCAGACCTGCTTGCTTA  >  NZ_CP025268/2788416‑2788687                                                                                                                                        |                                                                                                                                         aTCTATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTAtt                                                                                                                                      >  1:6666989/1‑140 (MQ=255)    tATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  2:5403696/140‑1 (MQ=255)    tATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  1:1639711/140‑1 (MQ=255)    tATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  2:5029724/140‑1 (MQ=255)    tATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  1:8536869/140‑1 (MQ=255)    tATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  1:5655694/140‑1 (MQ=255)       tttGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   >  2:4416807/1‑137 (MQ=255)       tttGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   >  2:4416640/1‑137 (MQ=255)       tttGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  1:4416640/137‑1 (MQ=255)       tttGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  1:4416807/137‑1 (MQ=255)                atatGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  1:10602866/128‑1 (MQ=255)                atatGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   >  2:10602865/1‑128 (MQ=255)                atatGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAgcgc                                                                                                                       <  1:9602060/140‑1 (MQ=255)                atatGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAgcgc                                                                                                                       <  1:8327256/140‑1 (MQ=255)                          cGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  2:7393636/118‑1 (MQ=255)                          cGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   >  1:7393637/1‑118 (MQ=255)                               ttCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        <  2:9317695/140‑1 (MQ=255)                               ttCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        <  1:4533815/140‑1 (MQ=255)                               ttCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        <  1:3002360/140‑1 (MQ=255)                               ttCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTNTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        <  1:5802339/140‑1 (MQ=255)                                    tACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCa                                                                                                   >  2:7328548/1‑140 (MQ=255)                                       aGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCatta                                                                                                >  2:1862674/1‑140 (MQ=255)                                         aCATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGc                                                                                                    >  2:220351/1‑134 (MQ=255)                                         aCATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGc                                                                                                    <  1:220351/134‑1 (MQ=255)                                         aCATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCattatt                                                                                              >  1:2080455/1‑140 (MQ=255)                                              tGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTAt                                                                                         >  1:7384456/1‑140 (MQ=255)                                                                       cgcgTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   <  2:856502/73‑1 (MQ=255)                                                                       cgcgTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCAt                                                                                                                                   >  1:856502/1‑73 (MQ=255)                                                                               actTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACAtttt                                                        >  2:8099197/1‑140 (MQ=255)                                                                                   ggCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCAtt                                                    >  1:6151219/1‑140 (MQ=255)                                                                                    gCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        >  1:5543671/1‑87 (MQ=255)                                                                                    gCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        <  2:5543671/87‑1 (MQ=255)                                                                                     cTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAgcgc                                                                                                                       <  1:4719531/71‑1 (MQ=255)                                                                                     cTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAgcgc                                                                                                                       >  2:4719531/1‑71 (MQ=255)                                                                                        aaGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAg                                                                                                                          >  1:8994207/1‑65 (MQ=255)                                                                                        aaGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAg                                                                                                                          <  2:8994206/65‑1 (MQ=255)                                                                                           tAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        >  1:10125779/1‑80 (MQ=255)                                                                                           tAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        <  2:10125778/80‑1 (MQ=255)                                                                                              aCCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCa                                                                                                                  >  2:3980025/1‑67 (MQ=255)                                                                                              aCCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCa                                                                                                                  <  1:3980025/67‑1 (MQ=255)                                                                                              aCCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCATTGTTTTCCAGCt                                         >  2:8760886/1‑140 (MQ=255)                                                                                                       aaaaTCACTTTTTCTTATATTATCTAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCATTGTTTTCCAGCTTTAGTTTaa                                <  2:6666988/140‑1 (MQ=255)                                                                                                           tCACTTTTTCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCATTGTTTTCCAGCTTTAGTTTAATgag                            <  1:2258030/140‑1 (MQ=255)                                                                                                                ttttCTTATATTATCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCATTGTTTTCCAGCTTTAGTTTAATGAGAAGAt                       <  1:648964/140‑1 (MQ=255)                                                                                                                             tCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        <  2:2751071/46‑1 (MQ=255)                                                                                                                             tCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGAt                                                                                                        >  1:2751071/1‑46 (MQ=255)                                                                                                                             tCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCa                                                                                                   >  2:7103824/1‑51 (MQ=255)                                                                                                                             tCGAAAAGGTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCa                                                                                                   <  1:7103825/51‑1 (MQ=255)                                                                                                                                     gTTCTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCATTGTTTTCCAGCTTTAGTTTAATGAGAAGATTTTCCCAGACCTGCTTGCTTa  <  1:1862674/140‑1 (MQ=255)                                                                                                                                        |                                                                                                                                         ATCTATTTTGTTTTCATATGAATTACGTGATTCCATACAGACATTTGGCGGCGTTTCTAAAATAACACTACGCGTACTACTTGGCTTAAGTAAACCAACATGAAAATCACTTTTTCTTATATTATCGAAAAGGTTTTATTCATTTCTTTTAGCGCATTCAAAAAACTGATCGGCATTATTTTTATTCGATAATTTTTTAGTTTCAGAAAACACATTTTCATTGTTTTCCAGCTTTAGTTTAATGAGAAGATTTTCCCAGACCTGCTTGCTTA  >  NZ_CP025268/2788416‑2788687

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑