Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,611,931	Δ1 bp	coding (32/2013 nt)	hyfR →	DNA‑binding transcriptional activator HyfR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,611,928	0	C	.	100.0%	119.4 / NA	29	coding (29/2013 nt)	hyfR	DNA‑binding transcriptional activator HyfR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (16/13);  total (16/13)

ATGGCCAGAAAAATTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTGCCCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAACACGGCAAGG  >  NC_000913/2611850‑2612002                                                                               |                                                                           aTGGCCAGAAAAATTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTGccc                                                                          <  1:466489/81‑1 (MQ=255) aTGGCCAGAAAAATTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTGcc                                                                           <  2:466488/80‑1 (MQ=255)    gCCAGAAAAATTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTGcccgcc                                                                       <  2:466491/81‑4 (MQ=255)    gCCAGAAAAATTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTGcccgc                                                                        >  2:466526/1‑78 (MQ=255)      cAGAAAAATTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCcac                                                                    <  2:466492/81‑1 (MQ=255)         aaaaaTTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAg                                                                 <  1:466493/81‑1 (MQ=255)           aaaTTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAgg                                                                >  2:466528/1‑80 (MQ=255)              ttGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAAt                                                             >  1:466534/1‑80 (MQ=255)                    gagaAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAAtt                                                      >  2:466541/1‑81 (MQ=255)                    gagaAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAAtt                                                      >  1:466518/1‑81 (MQ=255)                            tttCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGt                                              <  2:466494/81‑1 (MQ=255)                               ctcATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTaa                                            <  1:466495/80‑1 (MQ=255)                                 cATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACg                                         >  1:466531/1‑81 (MQ=255)                                  aTTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCA‑AAGGAATAACAATTGAAGCGGTAAACgg                                        >  2:466539/1‑80 (MQ=255)                                     aataaGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGaa                                      <  1:466496/80‑1 (MQ=255)                                      ataaGGACTGTTGATGGCTATGTAAGAAGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAAt                                     <  1:466497/80‑1 (MQ=255)                                        aaGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCt                                  >  1:466522/1‑81 (MQ=255)                                         aGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCt                                  <  1:466498/80‑1 (MQ=255)                                            aCTGTTGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTcgcg                              >  2:466530/1‑81 (MQ=255)                                                ttGATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGc                          <  1:466499/81‑1 (MQ=255)                                                  gATGGCTATGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCgg                        >  1:466537/1‑81 (MQ=255)                                                          tGTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGca                  <  1:466500/79‑1 (MQ=255)                                                           gTCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGca                  >  1:466547/1‑78 (MQ=255)                                                            tCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAg               <  1:466501/80‑1 (MQ=255)                                                            tCAGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAg               <  2:466502/80‑1 (MQ=255)                                                              aGACGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAATCGGAATGCTCGCGGAGCGGTTAGCACAGaaa            >  2:466540/1‑81 (MQ=255)                                                                aCGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAaca          >  2:466535/1‑81 (MQ=255)                                                                 cGAGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAacac         <  2:466503/81‑1 (MQ=255)                                                                   aGGCGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAACACgg       >  1:466544/1‑81 (MQ=255)                                                                      cGATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAACACGGc      >  1:466542/1‑79 (MQ=255)                                                                       gATGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAACACGGCAAg   >  2:466533/1‑81 (MQ=255)                                                                        aTGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAACACGGCAAgg  >  2:466538/1‑81 (MQ=255)                                                                        aTGTTTG‑CCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAACACGGCAAgg  <  1:466504/81‑1 (MQ=255)                                                                               |                                                                           ATGGCCAGAAAAATTGCGTGAGAAGGATTTCTCATTAATAAGGACTGTTGATGGCTATGTCAGACGAGGCGATGTTTGCCCCGCCACAAGGAATAACAATTGAAGCGGTAAACGGAATGCTCGCGGAGCGGTTAGCACAGAAACACGGCAAGG  >  NC_000913/2611850‑2612002

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: ‑