Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,253,881	(A)5→4	coding (334/897 nt)	yhaJ ←	DNA‑binding transcriptional activator YhaJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,253,877	0	A	.	100.0%	133.6 / NA	32	coding (338/897 nt)	yhaJ	DNA‑binding transcriptional activator YhaJ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (19/13);  total (19/13)

AGGAACGAAAATGCATATCCGGCGCGATAACAATATCCGCCCGCCCCTGCTCCAGCCGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGGAAAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCCAACAACATC  >  NC_000913/3253740‑3254011                                                                                                                                          |                                                                                                                                       aGGAACGAAAATGCATATCCGGCGCGATAACAATATCCGCCCGCCCCTGCTCCAGCCGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGGaaa                                                                                                                                      >  2:498871/1‑140 (MQ=255)                            aaaaaaTACCCCCCCGCCCCTGCCCCAGCCGATCCCACGTCCCCGCCATCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCgg                                                                                                          <  2:235994/136‑1 (MQ=255)                                 attcccccccgcccCTGCTCCAGCCGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTcaca                                                                                                     <  2:367518/133‑1 (MQ=255)                                      cgcccgccCCTGCTCCAGCCGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAAGTGTCGGTTCCAGGGCTTCGGTCACAATGGt                                                                                                >  2:274569/1‑140 (MQ=255)                                         ccgcccCTGCTCCAGCCGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGAATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTgag                                                                                             >  2:123103/1‑140 (MQ=255)                                            ccccTGCTCCAGCCGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATg                                                                                          >  2:55253/1‑140 (MQ=255)                                                        ccGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAAcc                                                                              <  2:524889/140‑1 (MQ=255)                                                         cGTTCCCACGCCCCCACCAGCATTTTTGTTATGATTGTCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACcg                                                                             <  1:291949/140‑1 (MQ=255)                                                            tCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACcgcgc                                                                          >  1:151723/1‑140 (MQ=255)                                                             cccACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACcgcgcg                                                                         >  1:382059/1‑140 (MQ=255)                                                                     cccACCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGGGATGCGGTTCCCACCCGCGCGCGAGAGCt                                                                 >  1:240249/1‑140 (MQ=255)                                                                      ccGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCtt                                                                >  1:70263/1‑140 (MQ=255)                                                                               cTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCag                                                       <  1:128535/140‑1 (MQ=255)                                                                                     tgatgaTTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCa                                                 >  2:510117/1‑140 (MQ=255)                                                                                       atgatTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTTCCAACCGAGCGGGATAGCTTCTGCATCAGTAGTCAGt                                               >  1:227946/1‑140 (MQ=255)                                                                                          atTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTa                                            >  1:629036/1‑140 (MQ=255)                                                                                          atTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTa                                            >  2:474109/1‑140 (MQ=255)                                                                                            tGCCAGTTGGGGATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTGCCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCTGCATCAGTAGTCAGTTTATc                                          >  2:423423/1‑140 (MQ=255)                                                                                                               tttGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAAcg                       >  1:667617/1‑140 (MQ=255)                                                                                                                ttGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAAcgc                      >  1:36253/1‑140 (MQ=255)                                                                                                                 tGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAAcgcg                     >  2:558662/1‑140 (MQ=255)                                                                                                                 tGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAAcgcg                     >  2:622478/1‑140 (MQ=255)                                                                                                                 tGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAAcgcg                     >  2:387342/1‑140 (MQ=255)                                                                                                                 tGCCGCCAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGACAGTTTAGCTGCCACTTCCAGAAAAAcgcg                     >  2:322234/1‑140 (MQ=255)                                                                                                                     gccAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCt                 <  1:88358/140‑1 (MQ=255)                                                                                                                     gccAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCt                 <  2:151723/140‑1 (MQ=255)                                                                                                                     gccAGTTTGTCGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCt                 <  2:629036/140‑1 (MQ=255)                                                                                                                               cGATTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCcaaca       <  2:382059/140‑1 (MQ=255)                                                                                                                                 aTTAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCCaacaac     <  1:142369/140‑1 (MQ=255)                                                                                                                                  ttAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCCAacaaca    <  1:150926/140‑1 (MQ=255)                                                                                                                                  ttAACGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCCAacaaca    <  2:70263/140‑1 (MQ=255)                                                                                                                                    aaCGGG‑AAAAGGCAGTTGTCGGCACGAGCTCTTCGGTTACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCCAACAACAtc  <  1:240652/140‑1 (MQ=255)                                                                                                                                    aaCGGG‑AAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCCAACAACAtc  >  1:618224/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                       AGGAACGAAAATGCATATCCGGCGCGATAACAATATCCGCCCGCCCCTGCTCCAGCCGTTCCCACGCCCCCGCCAGCACTTCTGTGATGATTGCCAGTTGGGTATTGGCTTTTGCCGCCAGTTTGTCGATTAACGGGAAAAAGGCAGGTGTCGGTACCAGCGCTTCGGTCACAATGGTGAGATGCGTTTCCCAACCGCGCGCGAGAGCTTCCGCATCAGTAGTCAGTTTATCTGCGGCTTCCAGCAAAACGCGCCCTCGCTCCAACAACATC  >  NC_000913/3253740‑3254011

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑