Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,600,222	G→T	intergenic (‑13/+66)	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	1,600,222	0	G	T	100.0%	99.4 / NA	29	intergenic (‑13/+66)	lsrK/lsrR	autoinducer‑2 kinase/DNA‑binding transcriptional repressor LsrR
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (16/13);  total (16/13)

GTGCAGCGCCTGGCGCATACACTCACACGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTG  >  NC_000913/1599985‑1600465                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                    gggcggggcCTGGCGCATACACCCCCACGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGGACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTtc                                                                                                                                                                                                                                         <  1:73254/243‑1 (MQ=255)           tGGCGCATACACTCACACGCCAGTTGCCAGTTTTTGTTGAGAGCAAGTTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGACAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATTCGTTCTGTCTGTTCct                                                                                                                                                                                                                              >  2:256811/1‑251 (MQ=255)                             gccagttgccagttTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCcatcat                                                                                                                                                                                                            >  1:232010/1‑251 (MQ=255)                                     ccagttTTTGTTGAGATCAAATTCCATAGAACCAGGACCGTCCGTTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACATCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAGAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGta                                                                                                                                                                                                    <  1:76325/251‑1 (MQ=255)                                            ttgttgAGATCAAATTCCATAGAACCAGGATCGTCCGGTCCTGCCAGATGCGGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTGGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGAGTCTGAAAGGGTAAAGAGTCGAGGCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCGATACGTTCTCCATCATTCCCGGTAATAAgg                                                                                                                                                                                              <  1:186760/250‑1 (MQ=255)                                              gttgAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTc                                                                                                                                                                                            >  2:415452/1‑250 (MQ=255)                                                                  aaCCAGGAACGCCCGGTCCTGCCAGATGCCGCCCCTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTaaa                                                                                                                                                                       <  1:76449/251‑1 (MQ=255)                                                                      aGGAACGTCCGGTCCTGCCAGAGGCCGCCCCTCCGCCTGTCCCACTGCTATTTGATTGCTTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCGGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTTCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATcg                                                                                                                                                                   <  1:375786/251‑1 (MQ=255)                                                                        gAACGACCGGTACTGCCAGATGCCGACACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCATCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATcgcc                                                                                                                                                                 >  1:78210/1‑251 (MQ=255)                                                                                  tACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGCAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTgtgt                                                                                                                                                       >  1:87074/1‑251 (MQ=255)                                                                                           aTGCCGCCACTCCGCCTGTCCCACTGATCTTTGATTGCCTTCCAGGTCGAATATCACAGCCCGCATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCgg                                                                                                                                              >  2:271517/1‑251 (MQ=255)                                                                                                      ccGCCTGCCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTg                                                                                                                                     <  2:202025/249‑1 (MQ=255)                                                                                                                cACTGCTATTTGATTGCCTTCCAGGGCGAATATCACAGCCCGCATACTTCCGGTGCCTGCATCCAGCGCAATCAGGTAGAACTTTGATTCTGACAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGCTCGGTAACCAGTGCGTTGATATAAc                                                                                                                         >  2:459001/1‑251 (MQ=255)                                                                                                                         ttGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTc                                                                                                                 >  2:321221/1‑250 (MQ=255)                                                                                                                                              tatCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCgg                                                                                           >  2:188621/1‑251 (MQ=255)                                                                                                                                                  ccaGCCGGAATACTTCCGGTGCCTGCATCCAGCGCCGTAGGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCttt                                                                                       <  2:332060/250‑1 (MQ=255)                                                                                                                                                     gCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTCCTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTAtt                                                                                    >  1:270633/1‑251 (MQ=255)                                                                                                                                                                  cGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGcc                                                                       <  1:327442/251‑1 (MQ=255)                                                                                                                                                                    gTGCCTGCATCCAGCGCCATCAGGTAGTACTTGGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCAc                                                                     <  1:321221/251‑1 (MQ=255)                                                                                                                                                                         tGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCa                                                                 >  1:434522/1‑250 (MQ=255)                                                                                                                                                                            aTCCAGCGCCATCAGGTAGTATTTTGATTCTGAAAGGGTAAAGAGCCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAAccc                                                             <  1:234843/251‑1 (MQ=255)                                                                                                                                                                                         aGGTAGTACTTTGATTCTGAAAGGGTACAGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGt                                                >  2:66345/1‑251 (MQ=255)                                                                                                                                                                                                aCTTTGATTCTGAAAGGGTAAAGAACCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAgc                                         >  2:453529/1‑251 (MQ=255)                                                                                                                                                                                                            aaaGGGTAAAGAGTCGAGCCATTAGATTATCCTCTGCTTATCCGTTCTGTCTGTTCATCTATACGCTCTCCATCTTTCCCGGTAACAAGGTCATGCACATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGTTCGGAAACCAGAGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGCCGGGTATGGGCTTCAGCGCGCTTAAAggg                             >  2:431538/1‑250 (MQ=255)                                                                                                                                                                                                              ggggTAAGGAGTCGAGCCATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTaa                           <  1:8547/250‑1 (MQ=255)                                                                                                                                                                                                                       ggatgAGCAATTAGATTACCCTCTGCTTATGCGTTCTGATTGTTCTTCTATACGTCCTCCAACATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAg                  <  1:256811/247‑1 (MQ=255)                                                                                                                                                                                                                          agaaccATTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCCGTTc               >  2:321780/5‑251 (MQ=255)                                                                                                                                                                                                                           gAGCCTTTAGATTATCCTCTGCTTATGCGTTCTGTCTGTTCCTCGATGCTTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATTTAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCg              <  2:129206/251‑1 (MQ=255)                                                                                                                                                                                                                                        aTCCTCTGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTg  >  1:308217/1‑250 (MQ=255)                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                    GTGCAGCGCCTGGCGCATACACTCACACGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTG  >  NC_000913/1599985‑1600465

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑