Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	3,176,209	C→A	100%	D209Y (GAT→TAT)	cpdA ←	cAMP phosphodiesterase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,176,209	0	C	A	100.0%	70.0 / NA	24	D209Y (GAT→TAT)	cpdA	cAMP phosphodiesterase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (10/14);  total (10/14)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTCAGCGTGCCATCAGCATGTAACTCGAGAGTACGCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATCCAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACTGTGTTGATCGAGCCAACTACAACCCGCAGGTAG  >  NC_000913/3176070‑3176332                                                                                                                                            |                                                                                                                            ggcAGCGTGCCATCAGCATGTAACTCGAGAGTACGCCAGCCGGGCGCGATGGTAGCCAGCGTAGAGTGGGAACAGTGCGGCTTAAACTGCATACAGGGGGACGGCGTTGCAAGCAGGCGGCGACCATTCCAGTCGAGATACAg                                                                                                                          <  2:271254/141‑1 (MQ=255)   cAGCGTGCCATCAGCATGTAACTCGAGAGTACGCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCt                                                                                                                        <  1:2427/143‑1 (MQ=255)   cAGCGTGCCATCAGCATGTAACTCGAGAGTACGCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCt                                                                                                                        >  1:171590/1‑143 (MQ=255)                 cATGTAACTCGAGAGTACGCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACAGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGa                                                                                                          >  1:463696/1‑143 (MQ=255)                           gagaGTACGCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACCGCTCCTGCTGAATATGACCGCgcagca                                                                                                >  1:310813/1‑143 (MQ=255)                                  cGCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTAttt                                                                                         <  1:266347/143‑1 (MQ=255)                                   gCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGCGATACAGCCCCTGATGACTAAGACCGCACAGCAAGCGTTTg                                                                                        >  2:432584/1‑143 (MQ=255)                                              gcgATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGaac                                                                             >  2:113904/1‑142 (MQ=255)                                                    gTATCCCGCGTAAAGTTGGAACAGTTCTGCTTAAACTTCACACATGTCGACGGCGTTGCCAGCAGGCGGCGACCAGTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGc                                                                       <  1:321740/143‑1 (MQ=255)                                                         cAGCGTAAAGTGGGAACAGTGCGGCTTAAACGGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCGCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCa                                                                  <  2:190315/143‑1 (MQ=255)                                                          aGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCAc                                                                 >  2:5980/1‑143 (MQ=255)                                                                       aaCAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCg                                                    <  1:5980/143‑1 (MQ=255)                                                                            tGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCcgc                                               <  1:62126/143‑1 (MQ=255)                                                                                gCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTa                                           <  1:76307/143‑1 (MQ=255)                                                                                     aaCTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCTGCACGGTAGCCAGTTCGCCCGCGTTACGccg                                      >  2:51288/1‑141 (MQ=255)                                                                                      aCTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCCGa                                     >  1:204113/1‑143 (MQ=255)                                                                                        tGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGACGAATATGACCGCACAGCAGGTATTTGACGTGCGGAAACTTCGCCCGCACAGTATCCAGTTCGCCCGCGTTACGGCGACt                                   >  2:509682/1‑143 (MQ=255)                                                                                          ctcacaGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACtgt                                 <  1:317087/141‑1 (MQ=255)                                                                                                   cGACGGCGTTGCCATCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACTGTGTTGATCGa                        <  2:139704/143‑1 (MQ=255)                                                                                                   cGACGGCGTTGCCAGCATGCGGCGACCATTCCGGTCGAGATACAGCTCCTGATGAATATGTCCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACTGTGTTGATCGa                        <  2:411758/143‑1 (MQ=255)                                                                                                        gCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATCACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACTGTGTTGATCGAGCCaa                   <  2:53178/143‑1 (MQ=255)                                                                                                             gCCAGCAGGCGGCGACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAACTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACTGTGTTGATCGAGCCAACTACa              <  1:259497/143‑1 (MQ=255)                                                                                                                     gtggcgACCATTCCAGTCGAGATACCGGTCCTGATGAGTTTGACCGCACAGCAAGTATTGGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACACAGACTGTGTTGATCGAGCCAACTACAACCCGCAg      <  2:387308/141‑1 (MQ=255)                                                                                                                         cgACCATTCCAGTCGAGATACAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACTGTGTTGATCGAGCCAACTACCACCCGCAGGTAg  >  1:258055/1‑143 (MQ=255)                                                                                                                                            |                                                                                                                            GTCAGCGTGCCATCAGCATGTAACTCGAGAGTACGCCAGCCGGGCGCGATGGTATCCAGCGTAAAGTTGGAACAGTGCGGCTTAAACTGCACACAGGTCGACGGCGTTGCCAGCAGGCGGCGACCATTCCAGTCGAGATCCAGCTCCTGATGAATATGACCGCACAGCAAGTATTTGACGTGCGGAAACTTCGCCAGCACGGTATCCAGTTCGCCCGCGTTACGCAGACTGTGTTGATCGAGCCAACTACAACCCGCAGGTAG  >  NC_000913/3176070‑3176332

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑