Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,454,066	Δ1 bp	pseudogene (936/2646 nt)	yfcU ←	putative outer membrane usher protein YfcU

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,454,063	0	C	.	100.0%	115.3 / NA	28	pseudogene (939/2646 nt)	yfcU	putative outer membrane usher protein YfcU
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (12/16);  total (12/16)

AACGTACCGGAGACGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACGCCCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGCCGCGCAGATTGG  >  NC_000913/2453986‑2454139                                                                              |                                                                             aaCGTACCGGAGACGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACGccca                                                                           <  2:436613/81‑2 (MQ=255)    gTACCGGAGACGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACGcccatct                                                                        >  2:436645/1‑77 (MQ=255)     tACCGGAGACGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTg                                                                      <  1:436614/81‑1 (MQ=255)         ggAGACGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTg                                                                  <  2:436615/81‑1 (MQ=255)           agaCGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGAc                                                                >  2:436669/1‑81 (MQ=255)           agaCGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGAc                                                                >  1:436655/1‑81 (MQ=255)             aCGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACgg                                                              <  1:436616/81‑1 (MQ=255)                  aTCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACt                                                         >  2:436660/1‑81 (MQ=255)                     aCCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACtttt                                                      <  2:436618/81‑1 (MQ=255)                     aCCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACtttt                                                      <  2:436619/81‑1 (MQ=255)                     aCCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACttt                                                       <  2:436617/80‑1 (MQ=255)                      ccAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTg                                                     <  2:436620/81‑1 (MQ=255)                          gATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCtgt                                                 >  2:436657/1‑81 (MQ=255)                                 aaTACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGgtgtgt                                          >  2:436661/1‑81 (MQ=255)                                 aaTACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGgtgtg                                           <  2:436621/80‑1 (MQ=255)                                 aaTACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGgtgt                                            <  1:436622/79‑1 (MQ=255)                                             tCCAGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGaa                              <  2:436623/81‑1 (MQ=255)                                                aGCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTTGCTGACGGTCACTTTTGCTGTGGTGTCTGCCACGCCGGAAATg                           >  1:436652/1‑81 (MQ=255)                                                 gCCGTAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTATTGCTGTGGTGTGTGCCACGCCGGAAATGt                          <  2:436624/81‑1 (MQ=255)                                                 gCCGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGt                          >  2:436668/1‑81 (MQ=255)                                                  ccGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTc                         <  2:436625/81‑1 (MQ=255)                                                   cGGAACCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCt                        <  2:436626/81‑1 (MQ=255)                                                      aaCCTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGgc                     <  2:436627/81‑1 (MQ=255)                                                         cTGCGTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGcgcg                  >  2:436656/1‑81 (MQ=255)                                                             gTTTCGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGc              >  2:436662/1‑81 (MQ=255)                                                                 cGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGCcgcg          >  2:436653/1‑81 (MQ=255)                                                                 cGTAAATCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGCcgc           <  1:436628/80‑1 (MQ=255)                                                                     aaTCACACG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGCCGCGCAGa      <  1:436629/81‑1 (MQ=255)                                                                        cacaCG‑CCCAT‑TGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGCCGCGCAGATTgg  >  2:436680/1‑81 (MQ=255)                                                                         acacG‑CCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGCCGCGCAGATTgg  >  1:436679/1‑81 (MQ=255)                                                                              |                                                                             AACGTACCGGAGACGGAATCACCAAGATCCTGAATACGAAACGGTCCAGCCGGAACCTGCGTTTCGTAAATCACACGCCCCATCTGGCTGACGGTCACTTTTGCTGTGGTGTGTGCCACGCCGGAAATGTCTGGCGCGTAGCCGCGCAGATTGG  >  NC_000913/2453986‑2454139

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑