Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,167,328	T→C	E698G (GAA→GGA)	mfd ←	transcription‑repair coupling factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,167,328	0	T	C	100.0%	174.8 / NA	47	E698G (GAA→GGA)	mfd	transcription‑repair coupling factor
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/21);  total (26/21)

CTAAATCTTTAAACTTGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTTCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGTTGGCGAAACGGTCGCGG  >  NZ_CP009273/1167251‑1167414                                                                              |                                                                                       cTAAATCTTTAAACTTGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGAttt                                                                            <  2:1584161/90‑1 (MQ=255)      tCTTTAACCTTGCCGTCACTTTGCAGCAGTTTGTGCGTACCGACCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTc                                                                       <  2:2240199/90‑1 (MQ=255)        tttAAACTTGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTg                                                                     >  2:410088/1‑90 (MQ=255)        tttAAACTTGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTg                                                                     >  2:354665/1‑90 (MQ=255)         ttAAACTTGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGc                                                                    >  2:654204/1‑90 (MQ=255)         ttAAACTTGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGc                                                                    >  2:2852012/1‑90 (MQ=255)                tGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTgg                                                             >  1:1116122/1‑90 (MQ=255)                tGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTgg                                                             >  2:1468747/1‑90 (MQ=255)                tGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTgg                                                             >  2:2389452/1‑90 (MQ=255)                 gACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGgc                                                            >  1:499918/1‑90 (MQ=255)                          ttGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGaa                                                   <  2:2932383/90‑1 (MQ=255)                          ttGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGaa                                                   <  1:354665/90‑1 (MQ=255)                               gcagTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACggg                                              >  1:1096732/1‑90 (MQ=255)                                  gTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGgaga                                           >  1:2524158/1‑90 (MQ=255)                                  gTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGgaga                                           >  2:190566/1‑90 (MQ=255)                                  gTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGgaga                                           >  1:2839966/1‑90 (MQ=255)                                   tttGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGAt                                          <  2:1839122/90‑1 (MQ=255)                                    ttGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGaa                                                   <  2:1903606/80‑1 (MQ=255)                                    ttGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGaa                                                   >  1:1903606/1‑80 (MQ=255)                                    ttGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATc                                         <  2:2839966/90‑1 (MQ=255)                                        gCGTCCCGATCAGAATATCGTTTTCCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCAttt                                     <  2:1537093/90‑1 (MQ=255)                                        gCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCAttt                                     <  2:2869372/90‑1 (MQ=255)                                        gCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCAttt                                     <  2:1454924/90‑1 (MQ=255)                                        gCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCAttt                                     <  2:779154/90‑1 (MQ=255)                                            aCCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCaa                                                                                  >  2:2482758/1‑41 (MQ=255)                                            aCCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCaa                                                                                  <  1:2482758/41‑1 (MQ=255)                                            aCCGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGAt                                 >  2:104877/1‑90 (MQ=255)                                             ccGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATa                                >  1:75048/1‑90 (MQ=255)                                             ccGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATa                                <  2:1202045/90‑1 (MQ=255)                                              cGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATa                                >  2:13517/1‑89 (MQ=255)                                              cGATCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATa                                <  1:13517/89‑1 (MQ=255)                                                aTCAGAATATCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGt                             >  1:1341055/1‑90 (MQ=255)                                                  cAGAATATCGTTTTCCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTAc                           <  1:954755/90‑1 (MQ=255)                                                       tatCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGcc                      >  2:165883/1‑90 (MQ=255)                                                       aatCGATCTTCCGTGCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATCCGTACCGGcc                      <  1:1973735/89‑1 (MQ=255)                                                         tCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATa                                <  2:2433198/78‑1 (MQ=255)                                                         tCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATa                                >  1:2433198/1‑78 (MQ=255)                                                         tCGATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAg                    >  2:1396293/1‑90 (MQ=255)                                                           gATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGtt                  >  2:2220903/1‑90 (MQ=255)                                                           gATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGtt                  >  1:819217/1‑90 (MQ=255)                                                           gATTTTCCCTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGtt                  >  1:2557185/1‑90 (MQ=255)                                                                 cccTTCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGTTGGCGaa            <  2:1102013/90‑1 (MQ=255)                                                                    ttCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCAttt                                     >  1:1300835/1‑62 (MQ=255)                                                                    ttCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGTTGGCGAAACg         <  2:819217/90‑1 (MQ=255)                                                                    ttCCGCCACTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGTTGGCGAAACg         >  1:2718250/1‑90 (MQ=255)                                                                    tgccgccgCTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCAttt                                     <  2:1300835/60‑1 (MQ=255)                                                                           aCTCCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGTTGGCGAAACGGTCGCgg  <  1:2716475/90‑1 (MQ=255)                                                                              |                                                                                       CTAAATCTTTAAACTTGACGTCACTTTGCAGCAGTTTGTGCGTACCGATCAGAATATCGATTTTCCCTTCCGCCACTTCCGCAAGGATTTGCGTCTGCTCTTTGGCGCTGCGGAAACGGGAGATCATTTCGATACGTACCGGCCAGTTGGCGAAACGGTCGCGG  >  NZ_CP009273/1167251‑1167414

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑