Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	659,747	Δ1 bp	coding (470/966 nt)	lipA ←	lipoate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	659,745	0	C	.	100.0%	140.8 / NA	31	coding (472/966 nt)	lipA	lipoate synthase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (14/17);  total (14/17)

CCGTACCTGACGGTAAATACGCGGTACGTTTTCCAGGTTATGGTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTTCCCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTCACTGGTTCATTG  >  NC_000913/659599‑659878                                                                                                                                                   |                                                                                                                                      ccGTACCTGACGGTAAATACGCGGTACGTTTTCCAGGTTATGGTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTTccg                                                                                                                                     >  1:306617/1‑148 (MQ=255) ccGTACCTGACGGTAAATACGCGGTACGTTTTCCAGGTTATGGTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTTccg                                                                                                                                     >  1:306620/1‑148 (MQ=255)      ccTGACGGTAAATACGCGGTACGTTTTCCAGGTTATGGTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAGTTTTGATTTGCGGGCTTTTTT‑CCGAATgg                                                                                                                               >  2:50305/1‑149 (MQ=255)              tAAATACGCGGTACGTTTTCCAGGTTATGGTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTATTg                                                                                                                       >  1:394014/1‑149 (MQ=255)              tAAATACGCGGTACGTTTTCCAGGTTATGGTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATg                                                                                                                       <  1:297065/149‑1 (MQ=255)                        gTACGGTTTACAGGGTATGGGTGAACACAGCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGCAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCaa                                                                                                             <  2:5464/149‑1 (MQ=255)                         tACGTTTTCCTGGTTATGTTTTCAACCTTCTGGTGGCGTTCCAGTCAGCATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCaaa                                                                                                            <  2:24023/149‑1 (MQ=255)                               ttCCAGGTTATGGTTGAACACAGCTGGTGGCGGTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTg                                                                                                      <  1:191074/149‑1 (MQ=255)                                     gTTATGGTTGAACACATCTGGTGGCGTCGCAGTCAGAATATCCAGAGCACGAGCCATACGACCGCGGAAATCCGGCACCAGAGTTACAATTTTGATGTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCAcc                                                                                                <  2:162244/149‑1 (MQ=255)                                           gTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCGCCGCCATc                                                                                          >  2:193063/1‑149 (MQ=255)                                           gTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATc                                                                                          <  2:22133/149‑1 (MQ=255)                                            ttGGACACGTGTGGTGGCGTTGCAGTCAGCATATCCAGAGCACGATCCATGCGACCGCGGCGATCCGGCACCAGGGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATcg                                                                                         <  2:118484/149‑1 (MQ=255)                                                    aTCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAgggc                                                                                 >  2:118942/1‑147 (MQ=255)                                                          tggCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGATTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCCCCGCCATCGCGCAGGTCATCACg                                                                           <  2:306617/149‑1 (MQ=255)                                                          tggCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAAACCGGCACCAGAGATTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCTCCGCCATCGCGCAGGTCATCACg                                                                           <  2:306620/149‑1 (MQ=255)                                                                   aGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGAAATGCAATCTGCAAAGTGCTGGGCACCGCCATCGGGCAGGTCATCACGGTCAACGGa                                                                  >  1:213286/1‑149 (MQ=255)                                                                    gTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTCGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAg                                                                 <  1:290051/149‑1 (MQ=255)                                                                     tCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGCTTAAACCTTCATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAgg                                                                <  1:438851/149‑1 (MQ=255)                                                                      cAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGTTTTGCGGGCTTGTTT‑CCGAATGGGAGTAATGCAATCCGCGAAGTGCGTGGGACCGCCATCGGGCAGGTCATCCCGGCCAACGggggg                                                               >  2:228016/1‑148 (MQ=255)                                                                         aaTATCCAGAGCACGATCCATACGAGCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑TCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGGCCGGCCATCGCGCAGGTCATCACGGTCAACGGGGGGGAt                                                            >  1:267616/1‑149 (MQ=255)                                                                                agagCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACcaca                                                     >  1:427675/1‑149 (MQ=255)                                                                                                   cgcgGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCgg                                  >  1:395220/1‑149 (MQ=255)                                                                                                        aaaTCCGGCACCAGGGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATg                             <  1:380371/149‑1 (MQ=255)                                                                                                             cGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTg                        <  2:113826/149‑1 (MQ=255)                                                                                                              ggCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATACCGCAGCGCCATATCAGCAATGGTCTgc                       >  2:227957/1‑149 (MQ=255)                                                                                                                    agagTTTCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAAGCAGAAAATTGCTGTGCACGGGCATCGCGCAGGTCATCACGGTCAACGGAGGAGATGACCCCACAACGCGGCGCCCAACCGGCAAATGTCTGAGcccat                 >  2:294167/1‑146 (MQ=255)                                                                                                                        tttCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTcc             >  1:434272/1‑148 (MQ=255)                                                                                                                        tttCAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTCa             >  1:253845/1‑149 (MQ=255)                                                                                                                         ttcacatttGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCGAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTCAc            <  2:98523/143‑1 (MQ=255)                                                                                                                           cAATTTTGATTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGCTAACCACATAACGCAGCGCCATATCAGCAAGGGTCTGCGCCAGGTTcccgg          >  2:413403/1‑145 (MQ=255)                                                                                                                           cAATTTTGATTTGCGGGCCTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTCACTg          <  2:358394/149‑1 (MQ=255)                                                                                                                                 tGATTTGCGGGCTTGTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTCACTGGTTCAt    <  2:213286/149‑1 (MQ=255)                                                                                                                                   aTTTGCGGGCTTTTTT‑CCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTCACTGGTTCATTg  <  2:361243/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                      CCGTACCTGACGGTAAATACGCGGTACGTTTTCCAGGTTATGGTTGAACACATCTGGTGGCGTTGCAGTCAGAATATCCAGAGCACGATCCATACGACCGCGGAAATCCGGCACCAGAGTTTCAATTTTGATTTGCGGGCTTTTTTCCCGAATGGCAGTAATGCAATCCGCAAAGTGCTGGGCACCGCCATCGCGCAGGTCATCACGGTCAACGGAGGTGATAACCACATAACGCAGCGCCATATCGGCAATGGTCTGCGCCAGTTTCACTGGTTCATTG  >  NC_000913/659599‑659878

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: ‑