Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,597,313	(C)7→8	pseudogene (774/5422 nt)	yneO ←	AIDA‑I family autotransporter YneO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,597,306	1	.	C	100.0%	150.0 / NA	42	pseudogene (781/5422 nt)	yneO	AIDA‑I family autotransporter YneO
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (25/17);  total (25/17)

GAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGC  >  NC_000913/1597170‑1597440                                                                                                                                          |                                                                                                                                        gAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑ccc                                                                                                                                     >  2:317458/1‑140 (MQ=255)   aaTATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑ccccc                                                                                                                                   <  1:345512/140‑1 (MQ=255)              tgCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑ccccccc                                                                                                                                 <  2:504270/131‑1 (MQ=255)              tgCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑ccccccc                                                                                                                                 >  1:504270/1‑131 (MQ=255)               gCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATa                                                                                                                        >  1:355043/1‑140 (MQ=255)               gCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑cccccccctcgc                                                                                                                            <  1:975141/135‑6 (MQ=255)               gCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑cccccccctcgc                                                                                                                            >  2:975141/1‑130 (MQ=255)                 cATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGt                                                                                                                      <  1:440527/140‑1 (MQ=255)                         aaaTATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTccc                                                                                                              <  2:439547/140‑1 (MQ=255)                               ccATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTc                                                                                                        <  1:867490/140‑1 (MQ=255)                                 aTTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCt                                                                                                      >  2:219880/1‑140 (MQ=255)                                      agagTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTcc                                                                                                       <  1:171506/134‑1 (MQ=255)                                      agagTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTcc                                                                                                       >  2:171506/1‑134 (MQ=255)                                        agTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCTATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTAc                                                                                               >  2:684878/1‑140 (MQ=255)                                        agTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTAc                                                                                               >  1:502155/1‑140 (MQ=255)                                          tCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCa                                                                                             >  1:429737/1‑140 (MQ=255)                                            tGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAAt                                                                                           >  1:345173/1‑140 (MQ=255)                                                  ccGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGaaa                                                                                     <  1:684878/140‑1 (MQ=255)                                                  ccGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGaaa                                                                                     <  1:119609/140‑1 (MQ=255)                                                   cGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAAt                                                                                    >  2:882535/1‑140 (MQ=255)                                                             gagTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAAtt                                                                                   <  2:570276/131‑1 (MQ=255)                                                             gagTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAAtt                                                                                   >  1:570276/1‑131 (MQ=255)                                                             gagTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAgg                                                                          >  1:773417/1‑140 (MQ=255)                                                              agTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGa                                                                         >  1:846134/1‑140 (MQ=255)                                                              agTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGa                                                                         >  1:771840/1‑140 (MQ=255)                                                                     aTCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCatta                                                                  >  2:69020/1‑140 (MQ=255)                                                                          gCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTAttttt                                                             >  2:116014/1‑140 (MQ=255)                                                                                tCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAg                                                       >  1:715987/1‑140 (MQ=255)                                                                                  aGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGcc                                                     <  1:219880/140‑1 (MQ=255)                                                                                    ggTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCAc                                                   >  2:81087/1‑140 (MQ=255)                                                                                            tACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCAcc                                           >  2:430287/1‑140 (MQ=255)                                                                                             aCCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCAccc                                          <  1:69020/140‑1 (MQ=255)                                                                                                  tGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTc                                     >  2:888126/1‑140 (MQ=255)                                                                                                      aTTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAAc                                  >  1:218335/1‑140 (MQ=255)                                                                                                      aTTGCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACg                                 <  2:429737/140‑1 (MQ=255)                                                                                                         gCCACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACa                              <  2:773417/140‑1 (MQ=255)                                                                                                           cACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAAc                            >  2:585558/1‑140 (MQ=255)                                                                                                           cACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAAc                            >  1:137067/1‑140 (MQ=255)                                                                                                           cACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAAc                            <  2:345173/140‑1 (MQ=255)                                                                                                           cACCGATAATCGTATTTTCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAAc                            <  1:388019/140‑1 (MQ=255)                                                                                                                aTAATCGTATTTTCAGCCGTAACCAACCCCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTgg                        <  2:218335/140‑1 (MQ=255)                                                                                                                         ttttCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGc              <  2:7994/140‑1 (MQ=255)                                                                                                                          tttCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGcc             >  2:510877/1‑140 (MQ=255)                                                                                                                           ttCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGcc             >  2:502840/1‑139 (MQ=255)                                                                                                                           ttCAGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGcc             <  1:502840/139‑1 (MQ=255)                                                                                                                              aGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGcc         >  2:411363/1‑140 (MQ=255)                                                                                                                              aGCCGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGcc         >  1:731956/1‑140 (MQ=255)                                                                                                                                 cGTAACCAAC‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGa      <  2:731956/140‑1 (MQ=255)                                                                                                                                     accaac‑cCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGc  >  1:439014/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                        GAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑‑CCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGC  >  NC_000913/1597170‑1597440

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑