Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	635,449	T→C	S81P (TCC→CCC)	ahpF →	alkyl hydroperoxide reductase subunit F

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	635,449	0	T	C	100.0%	108.4 / NA	31	S81P (TCC→CCC)	ahpF	alkyl hydroperoxide reductase subunit F
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (14/17);  total (14/17)

AAGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTAC  >  NZ_CP009273/635317‑635583                                                                                                                                     |                                                                                                                                       aaGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGc                                                                                                                                  <  1:29109/139‑1 (MQ=255)          ttGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCa                                                                                                                           <  1:347348/137‑1 (MQ=255)          ttGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCAc                                                                                                                          >  2:321976/1‑138 (MQ=255)                 aaaTCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCAc                                                                                                                  <  2:128112/139‑1 (MQ=255)                      gCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCg                                                                                                              <  1:321976/138‑1 (MQ=255)                      gCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGc                                                                                                             <  1:12683/139‑1 (MQ=255)                      gCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGc                                                                                                             <  2:298763/139‑1 (MQ=255)                               tCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTgg                                                                                                    >  2:88724/1‑139 (MQ=255)                               tCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTgg                                                                                                    >  1:240935/1‑139 (MQ=255)                                 aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCg                                                                                                  <  2:188796/139‑1 (MQ=255)                                         tCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTg                                                                                               >  1:330263/1‑134 (MQ=255)                                         tCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTg                                                                                               <  2:330263/134‑1 (MQ=255)                                            ccTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAc                                                                                       <  1:331063/139‑1 (MQ=255)                                            ccTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAc                                                                                       <  2:96281/139‑1 (MQ=255)                                                               cTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGa                                                                      >  1:6336/1‑137 (MQ=255)                                                                 tGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAaag                                                                   >  2:337994/1‑138 (MQ=255)                                                                         cGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGt                                                          >  2:147984/1‑139 (MQ=255)                                                                                   cTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCg                                                                                                  >  1:120759/1‑89 (MQ=255)                                                                                   cTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCg                                                                                                  <  2:120759/89‑1 (MQ=255)                                                                                   cTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTctgctg                                                  >  1:281354/1‑137 (MQ=255)                                                                                           aTCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGAt                                          <  1:97684/137‑1 (MQ=255)                                                                                           aTCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGAt                                          <  2:6336/137‑1 (MQ=255)                                                                                                 aaCCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCata                                  <  2:308172/139‑1 (MQ=255)                                                                                                       ggTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAgcg                                                              <  2:268774/105‑1 (MQ=255)                                                                                                       ggTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAgcg                                                              >  1:268774/1‑105 (MQ=255)                                                                                                           ccAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGa                        >  1:111817/1‑139 (MQ=255)                                                                                                             aaCCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGAtt                      >  2:197544/1‑139 (MQ=255)                                                                                                                        aCGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGc                                      >  2:176566/1‑112 (MQ=255)                                                                                                                        aCGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGc                                      <  1:176566/112‑1 (MQ=255)                                                                                                                              tGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTAt     >  1:5248/1‑139 (MQ=255)                                                                                                                                 aGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTAc  <  1:436344/139‑1 (MQ=255)                                                                                                                                     |                                                                                                                                       AAGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTAC  >  NZ_CP009273/635317‑635583

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑