Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,600,234	C→T	intergenic (‑25/+54)	lsrK ← / ← lsrR	autoinducer‑2 kinase/DNA‑binding transcriptional repressor LsrR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,600,234	0	C	T	100.0%	64.4 / NA	21	intergenic (‑25/+54)	lsrK/lsrR	autoinducer‑2 kinase/DNA‑binding transcriptional repressor LsrR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (10/11);  total (10/11)

ACGCCAGTTGCCAGTTTTTGTT‑GAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTGATATTCGTGACAACG  >  NC_000913/1600011‑1600480                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                       acGCCAGTTGCCAGTTTTTGTT‑GAGATCCAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCcatc                                                                                                                                                                                                                             >  1:69610/1‑251 (MQ=255)     cagttgccagttTTTGTT‑GAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTc                                                                                                                                                                                                                         <  1:147463/251‑1 (MQ=255)           gcaggttttGTTTGAGATCAAATTCCATGGAACCAGCAACGGCCGGTACTGCCGAATGCCGCCACTCCGCCTGTCCCCCGGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCgg                                                                                                                                                                                                                     <  1:251108/245‑1 (MQ=255)                                aTTCCATAGAACCAGGACCGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTaa                                                                                                                                                                                               <  1:184713/251‑1 (MQ=255)                                    cATAGAACCAGGACCTTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTAc                                                                                                                                                                                           <  1:29804/251‑1 (MQ=255)                                           ccAGGAACGTCCGGTACTGCCAGGTGCCGCCACTACGCCTGCCCCACTGCTATTTGATGGCCTTCAAGGTCGCATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGTCCTTAGCTTATACTCGGCTTATGAGTTTTGTCGGTTCCTCTATACGTTCTCAATCATTTCAGGTAATAAGTACATGAAAATTTAACTTCGTAAAAt                                                                                                                                                                                    >  2:333946/1‑251 (MQ=255)                                                            tGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATACGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCt                                                                                                                                                                   >  2:160233/1‑251 (MQ=255)                                                            tGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCt                                                                                                                                                                   >  1:210032/1‑251 (MQ=255)                                                                        cccttccccctttcccgttgttATTTGATGGCCGTCCAGGTCAAATACTACGGCCCGAATACTGCCGGTTCCTACATCCAGCGCCATCAGGTAGTACTTTGATGCTGAAAGGGTAATGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCa                                                                                                                                                       <  2:69610/230‑1 (MQ=255)                                                                                                ttGATTGCCTTCCAGGAAGAATCTCACACCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTCAAAGCGTACAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCATCTATAAGTTCTACATAATTCCCGGAAATAAGGACATGCAAATTTCACTCAGTAAAAACGCCGCTGCTGTGTCCTGATCGGCACCCAGGGCGTTGATATAACCGCATTTct                                                                                                                               >  2:326206/1‑250 (MQ=255)                                                                                                          cccAGGTCTAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGc                                                                                                                     <  1:335485/250‑1 (MQ=255)                                                                                                                      atCACAGCCCGAATCCTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTTTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGc                                                                                                         <  1:109323/251‑1 (MQ=255)                                                                                                                                                  cATCCAGCCCCTTCAGGTTGTTCTTTGATTCTTAAAGGGTAAAGACTCGAGCCATTAGATTATCCTCGGCTTATGTGTTTTGTCTGTTCCTCTAGACTGTCCCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGAGATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAAcc                                                                             <  1:93407/251‑1 (MQ=255)                                                                                                                                                        gcgcCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCggccg                                                                       >  1:257947/1‑248 (MQ=255)                                                                                                                                                                       aCTTTTATTTTGAAGGGATAAAGAGTCGAGCCATTAGTTTATCCTCGGCTTATGCGTTTTTTCTTTTCCTCTATACTTTCTCCATCATTCCCGTTAATAAGGTCATGCAAATTTAACTACGTAAAAGCGCCTCGGCTGTGTCCTGATCGGTAACCAGTTCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAg                                                         <  1:320040/250‑1 (MQ=255)                                                                                                                                                                           tGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAgcgcgc                                                    >  1:111100/1‑251 (MQ=255)                                                                                                                                                                             aTTCTGAAAGGTTAAAGATCCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCtt                                                  <  1:101928/251‑1 (MQ=255)                                                                                                                                                                                tggaattggTAAACAGTCGTGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCGTTATACGTTTTCCATCATCCCCGGTAATAATGTCATTCAAATTTAACTACTTAAAATCGCCTCTGCTGTGTCCTATTCGGTAACCAGTGCGTTTATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCATCCCGGACGGGTATGGTCTTCAGCGCGCTTaa                                                <  1:187559/243‑1 (MQ=255)                                                                                                                                                                                              attCGATCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCACATTTAACTACGTAAAATCGCAGCTGCTGTGTCCTGATCGGTAACCAGTGCGATGATATAACCGACTTTCATTGCAGCGGCAATTGCTTCGGCTTTATGTTCTACCCCTGCCACGCCAACACGTACGGGTATGATCTACAGCACGCTTAATGGGAAGCAAATCa                                  >  2:237189/3‑250 (MQ=255)                                                                                                                                                                                                          aGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAGTCAGTTCGTTATgaat                     >  1:263527/1‑248 (MQ=255)                                                                                                                                                                                                                             cGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCCCTTCGTTATGTATTTTGATATTCGTGACAACg  >  2:227856/1‑251 (MQ=255)                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                       ACGCCAGTTGCCAGTTTTTGTT‑GAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTGATATTCGTGACAACG  >  NC_000913/1600011‑1600480

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑