Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	402,171	T→A	L142Q (CTG→CAG)	phoA →	alkaline phosphatase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	402,171	0	T	A	100.0%	112.6 / NA	31	L142Q (CTG→CAG)	phoA	alkaline phosphatase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (14/17);  total (14/17)

ACCGGACTACGTCACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCTGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAGGTCTGGCGACCGGTAACG  >  NC_000913/402097‑402248                                                                           |                                                                              aCCGGACTACGTCACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGt                                                                         >  1:85719/1‑81 (MQ=255)   cGGACTACGTCACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCg                                                                       <  2:85685/81‑1 (MQ=255)      aCTACGTCACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGata                                                                    >  2:85712/1‑81 (MQ=255)          cGTCACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCa                                                                <  1:85686/81‑1 (MQ=255)             cACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACg                                                              >  2:85723/1‑80 (MQ=255)             cACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACg                                                              >  2:85733/1‑80 (MQ=255)              aCCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGa                                                             <  1:85687/80‑1 (MQ=255)              aCCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGa                                                             >  2:85729/1‑80 (MQ=255)               ccGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGaaa                                                           <  1:85688/81‑1 (MQ=255)                 gACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGaaa                                                           >  1:85722/1‑79 (MQ=255)                  aCTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAg                                                        <  2:85689/81‑1 (MQ=255)                     cGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGAt                                                      >  1:85724/1‑80 (MQ=255)                     cGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGAt                                                      >  2:85726/1‑80 (MQ=255)                      ggCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGAt                                                      <  1:85691/79‑1 (MQ=255)                      ggCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATc                                                     <  1:85690/80‑1 (MQ=255)                       gCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCAc                                                   >  2:85727/1‑81 (MQ=255)                             tCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAAc                                              >  1:85745/1‑80 (MQ=255)                               aGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATCCACGAAAAAGATCACCCAACGAt                                           >  2:85725/1‑81 (MQ=255)                                 cAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTc                                         <  1:85692/81‑1 (MQ=255)                                  aaCCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCt                                        <  2:207201/81‑1 (MQ=255)                                  aaCCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCt                                        <  2:85693/81‑1 (MQ=255)                                  aaCCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCt                                        >  1:85728/1‑81 (MQ=255)                                   aCCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTg                                       <  1:85694/81‑1 (MQ=255)                                         tGGTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCCCGAAAAAGATCACCCAACGATTCTGGAAATg                                 >  2:85739/1‑81 (MQ=255)                                           gTCAACCGGTGTCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATg                                 <  2:85695/79‑1 (MQ=255)                                                      tCAAAACCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAg                    <  2:85696/81‑1 (MQ=255)                                                          aaCCTATAACGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAGGTCt                <  2:85697/81‑1 (MQ=255)                                                                  aCGGCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAGGTCTGGCGAcc         <  1:85698/80‑1 (MQ=255)                                                                    ggCGCGCAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAGGTCTGGCGACCgg       >  1:85730/1‑80 (MQ=255)                                                                        cgcAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAGGTCTGGCGACCGGTAACg  <  2:85699/81‑1 (MQ=255)                                                                        cgcAGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAGGTCTGGCGACCGGTAACg  <  1:85700/81‑1 (MQ=255)                                                                           |                                                                              ACCGGACTACGTCACCGACTCGGCTGCATCAGCAACCGCCTGGTCAACCGGTGTCAAAACCTATAACGGCGCGCTGGGCGTCGATATTCACGAAAAAGATCACCCAACGATTCTGGAAATGGCAAAAGCCGCAGGTCTGGCGACCGGTAACG  >  NC_000913/402097‑402248

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: ‑