Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,597,313	(C)7→6	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	1,597,307	0	C	.	100.0%	184.9 / NA	44	pseudogene (780/5422 nt)	yneO	AIDA‑I family autotransporter YneO
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (25/19);  total (25/19)

ATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCT  >  NC_000913/1597175‑1597442                                                                                                                                     |                                                                                                                                        atTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAcccccctc                                                                                                                                  >  2:709802/1‑138 (MQ=255)   tGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAAcccccctcgc                                                                                                                                >  2:62140/1‑136 (MQ=255)         tgCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAg                                                                                                                         >  1:176863/1‑140 (MQ=255)             aTTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGc                                                                                                                     <  2:176863/140‑1 (MQ=255)                  cGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTccc                                                                                                                <  1:538710/140‑1 (MQ=255)                                   agTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCa                                                                                               >  2:403184/1‑140 (MQ=255)                                     tCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGt                                                                                                            <  2:425707/125‑1 (MQ=255)                                     tCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGt                                                                                                            >  1:425707/1‑125 (MQ=255)                                     tCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAAt                                                                                             >  2:698043/1‑140 (MQ=255)                                      cTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAAtt                                                                                            <  2:562933/140‑1 (MQ=255)                                       tGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAAttt                                                                                           >  2:370023/1‑140 (MQ=255)                                       tGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAAttt                                                                                           >  1:383763/1‑140 (MQ=255)                                        gCGTACCGTGATGACCGAGTCTGGAACCTACACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTg                                                                                          <  1:291287/140‑1 (MQ=255)                                        gCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGAGAATAGTAGCCACCACAGTTCCTTGATTACCAATTTg                                                                                          >  1:230577/1‑140 (MQ=255)                                               gTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGaaa                                                                                       <  2:94226/136‑1 (MQ=255)                                               gTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGaaa                                                                                       >  1:94226/1‑136 (MQ=255)                                               gTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCa                                                                                   >  2:644531/1‑140 (MQ=255)                                                tgatgaCAGAGTCTTGATCCTGTACTTTCCGGGTTCCTATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCaa                                                                                  <  1:351381/140‑1 (MQ=255)                                                   tgaCAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTg                                                                               >  1:686153/1‑140 (MQ=255)                                                           tCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCa                                                                       >  1:475349/1‑140 (MQ=255)                                                           tCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCa                                                                       >  1:662464/1‑140 (MQ=255)                                                            cTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCat                                                                      <  2:640447/140‑1 (MQ=255)                                                                   cTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTAttttt                                                               >  2:657808/1‑140 (MQ=255)                                                                     gCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCATTTCCTTGAGTACGAATGTGAAATTCAATTGAGGAATCATTATTTTtta                                                             >  2:201314/1‑140 (MQ=255)                                                                     gCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTtta                                                             >  1:444884/1‑140 (MQ=255)                                                                     gCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTtta                                                             >  2:88128/1‑140 (MQ=255)                                                                       acaTTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTttatt                                                           <  2:383763/140‑1 (MQ=255)                                                                           tCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGcc                                                       >  2:545752/1‑140 (MQ=255)                                                                           tCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGcc                                                       <  1:709802/140‑1 (MQ=255)                                                                            cAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTTATTACCAATTTGAAATACAATTGAGAAATCATTATTTTTTATTAGCCa                                                      >  2:267612/1‑140 (MQ=255)                                                                                 ttCCGATACCGGTGGCATTGCCACCGATAATCGTAGTTTGAGCCGTAAACAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGc                                                 <  2:218929/140‑1 (MQ=255)                                                                                   ccGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCa                                               >  2:165047/1‑140 (MQ=255)                                                                                   ccGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCa                                               >  1:58114/1‑140 (MQ=255)                                                                                           ggTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTGTTTATTGTTAGCCGCTCGCCACCCTTTTc                                       >  1:218929/1‑140 (MQ=255)                                                                                             tGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCaa                                     >  1:393220/1‑140 (MQ=255)                                                                                               gCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACg                                   <  1:668371/140‑1 (MQ=255)                                                                                                   tGCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACaa                               >  2:620331/1‑140 (MQ=255)                                                                                                    gCCACCGATAATCGTTTTTTCAACCCTAAACAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAAc                              <  1:201314/140‑1 (MQ=255)                                                                                                    gCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAAc                              <  1:657808/140‑1 (MQ=255)                                                                                                    gCCACCGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAAc                              <  1:377461/140‑1 (MQ=255)                                                                                                         cGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGc                         <  1:95913/140‑1 (MQ=255)                                                                                                         cGATAATCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGc                         <  1:403184/140‑1 (MQ=255)                                                                                                               tCGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTAc                   >  1:472805/1‑140 (MQ=255)                                                                                                                cGTATTTTCAGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACt                  <  2:472805/140‑1 (MQ=255)                                                                                                                         aGCCGTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCAACCTTTTCGACGACAACCTGGCAATTACTGCCCGCCTg         >  1:234919/1‑140 (MQ=255)                                                                                                                             gTAACCAA‑CCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAg     <  2:662464/140‑1 (MQ=255)                                                                                                                                accaa‑ccCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCt  >  2:544976/1‑140 (MQ=255)                                                                                                                                accaa‑ccCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTCTCAACGACAACCTGGCAATTACTGCCCGCCTGATAGCCt  >  2:260053/1‑140 (MQ=255)                                                                                                                                     |                                                                                                                                        ATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCT  >  NC_000913/1597175‑1597442

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑