Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,007,813	Δ1 bp	coding (57/621 nt)	rhtC →	L‑threonine exporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,007,810	0	C	.	100.0%	118.6 / NA	28	coding (54/621 nt)	rhtC	L‑threonine exporter
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (12/16);  total (12/16)

AACGTTTCCCCCGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAGCCCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAAAGAAGCGATGATGGGCGTGCTGG  >  NC_000913/4007732‑4007886                                                                               |                                                                             aaCGTTTCCCCCGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAGccc                                                                            >  1:788052/1‑81 (MQ=255)  aCGTTTCCCCCGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAGcccg                                                                           <  2:787979/81‑2 (MQ=255)    gTTTCCCCCGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAGcccggt                                                                         <  1:787980/81‑4 (MQ=255)    gTTTCCCCCGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAGcccggt                                                                         >  1:788028/1‑78 (MQ=255)        cccccGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTccc                                                                     <  1:787981/80‑1 (MQ=255)           ccGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGAtt                                                                 >  2:788057/1‑81 (MQ=255)           ccGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGAtt                                                                 >  1:788036/1‑81 (MQ=255)             gcgAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTc                                                               >  1:788022/1‑81 (MQ=255)              cgAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCt                                                              >  1:788041/1‑81 (MQ=255)               gAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCtt                                                             <  2:787982/81‑1 (MQ=255)                aGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCttt                                                            <  2:787983/81‑1 (MQ=255)                  tCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCttttt                                                          <  2:787984/81‑1 (MQ=255)                    aaaTGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTg                                                        <  2:787985/81‑1 (MQ=255)                     aaTGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGt                                                       >  2:788049/1‑81 (MQ=255)                     aaTGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGt                                                       >  2:788033/1‑81 (MQ=255)                          atgtTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGtctct                                                   >  2:788048/1‑80 (MQ=255)                               gATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGAc                                              <  1:787986/80‑1 (MQ=255)                                aTGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCg                                            <  2:787987/81‑1 (MQ=255)                                aTGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCg                                            >  2:788037/1‑81 (MQ=255)                                         ctcACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGt                                    <  2:787988/80‑1 (MQ=255)                                           cACCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGt                                 >  2:788043/1‑81 (MQ=255)                                            aCCGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGtt                                >  2:788032/1‑81 (MQ=255)                                             ccGTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTc                               <  2:787989/81‑1 (MQ=255)                                               gTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTccc                             <  2:787990/81‑1 (MQ=255)                                               gTCGCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTccc                             >  1:788050/1‑81 (MQ=255)                                                  gCCATGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTa                          <  1:787991/81‑1 (MQ=255)                                                      tGGTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAaaga                      <  1:787992/81‑1 (MQ=255)                                                        gTGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAaagaag                    <  2:787993/81‑1 (MQ=255)                                                         tGCACATTGTGGCGCTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAAAGAAGc                   <  2:787994/81‑1 (MQ=255)                                                                     cgcTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAAAGAAGCGATGATGGGCGt       <  1:787995/81‑1 (MQ=255)                                                                      gcTTATGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAAAGAAGCGATGATGGGCGTg      <  1:787996/81‑1 (MQ=255)                                                                          aTGAG‑CCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAAAGAAGCGATGATGGGCGTGCTgg  >  1:788027/1‑81 (MQ=255)                                                                               |                                                                             AACGTTTCCCCCGCGAGTCAAATGTATGTTGATGTTATTTCTCACCGTCGCCATGGTGCACATTGTGGCGCTTATGAGCCCCGGTCCCGATTTCTTTTTTGTCTCTCAGACCGCTGTCAGTCGTTCCCGTAAAGAAGCGATGATGGGCGTGCTGG  >  NC_000913/4007732‑4007886

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑