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%	103.9 / NA	30	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 (16/14);  total (16/14)

GCAGCGCCTGGCGCATACACTCACACGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTGATATTCGTGACAAC  >  NC_000913/1599987‑1600479                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                      gCAGCGCCTGGCGCATACACTCACACGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGCTTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTtttgt                                                                                                                                                                                                                                                    >  2:372417/1‑251 (MQ=255)                       ccacgccgggtgcgattttttGTTGAGATCAAATCCCATAGAACCAGGAACGCCCGGTACGGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCca                                                                                                                                                                                                                              <  2:273772/235‑1 (MQ=255)                       acacGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTcc                                                                                                                                                                                                                               >  2:103519/1‑250 (MQ=255)                          cGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCcatca                                                                                                                                                                                                                           <  1:103519/251‑1 (MQ=255)                                 tgccagttTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTtc                                                                                                                                                                                                                                  >  1:379586/1‑237 (MQ=255)                                 tgcaggttTTTGTTGAGACCAAATTCCAAGGAACCAGGACCGTCCGGTACCGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGGCGAATATCACAGCCCGAATACGTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTTCTTGGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTtc                                                                                                                                                                                                                                  <  2:379586/232‑1 (MQ=255)                                              tgAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATg                                                                                                                                                                                                       >  1:238506/1‑251 (MQ=255)                                                                 aCCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTaaa                                                                                                                                                                                     >  2:172286/1‑250 (MQ=255)                                                                       aaCGTCCGGTAATGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATcgccg                                                                                                                                                                              >  2:191767/1‑251 (MQ=255)                                                                               gtaatGCCAGAGGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCtgtg                                                                                                                                                                      <  2:195709/247‑1 (MQ=255)                                                                                tACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTgtgt                                                                                                                                                                     >  2:7730/1‑251 (MQ=255)                                                                                    gCCAGATACCCCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTCCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGTTTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTAGACGTTCTCCATCATTCCCGGTAATAAGGACATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTcc                                                                                                                                                                   <  2:414235/249‑1 (MQ=255)                                                                                       aGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATc                                                                                                                                                              >  1:1832/1‑251 (MQ=255)                                                                                                                cTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCg                                                                                                                                     >  2:165807/1‑251 (MQ=255)                                                                                                                  gCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCAGCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGc                                                                                                                                    <  1:298000/250‑1 (MQ=255)                                                                                                                         gATTGCCTTCCAGGTCGAATATCCCAGCCCAATTCCTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTATTTTGATTCTGAAAGGTTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCAtt                                                                                                                            <  2:238506/251‑1 (MQ=255)                                                                                                                                 tCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCg                                                                                                                      <  1:125197/249‑1 (MQ=255)                                                                                                                                 tCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATGCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCgg                                                                                                                     <  1:271257/250‑1 (MQ=255)                                                                                                                                                      cGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTAttttt                                                                                               >  1:17065/1‑250 (MQ=255)                                                                                                                                                               ccGGGGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGGCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGc                                                                                      <  1:7730/251‑1 (MQ=255)                                                                                                                                                                                         ccttttcgagtcgcttccgtttttAAAGCGTCGAGCCATTAGATTACCCTCGGCTTATGCGTTTGGTCTGTTCCTCTATACGTCCGCCATCATTCCCGGTAATAAGGTCTTGCAAATTTAACGACGTAAAATCTCCGCTGCTGTGGCCTGATCGGTAACCAGTTCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGTGTTGGCTTGATTGTCTCCCCCTTCCACGCCAACCCAGACGTGGATGGTCt                                                            <  2:286560/228‑1 (MQ=255)                                                                                                                                                                                                      tCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTa                                                <  1:263101/250‑1 (MQ=255)                                                                                                                                                                                                             gggTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTa                                          >  2:82935/1‑249 (MQ=255)                                                                                                                                                                                                               gTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGCTCCTCTATACGTTCTCCATAATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGcc                                      >  1:36616/1‑251 (MQ=255)                                                                                                                                                                                                                tAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTAAAGCAAATTTACCTACGTACAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACAGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCt                                                            >  1:286560/1‑228 (MQ=255)                                                                                                                                                                                                                                   aTTATCCTCGGCTTATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTAttt                  >  1:244360/1‑251 (MQ=255)                                                                                                                                                                                                                                               ttATGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATACGGTCATGCAAATTTAACTACGTACAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTGATATTCGTg       >  1:187674/1‑250 (MQ=255)                                                                                                                                                                                                                                                 aTGCGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTGATATTCGTGAc     >  2:367200/1‑250 (MQ=255)                                                                                                                                                                                                                                                   gCGTTTTGTCTGTTCCTCTATACGTTTTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCGTCTGTGTCCTGATCGGTACCCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGTCGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTGATATTCGTGACAAc  <  2:134113/251‑1 (MQ=255)                                                                                                                                                                                                                                                    cGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAg                                >  2:104326/1‑220 (MQ=255)                                                                                                                                                                                                                                                    cGTTTTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAg                                <  1:104326/220‑1 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                      GCAGCGCCTGGCGCATACACTCACACGCCAGTTGCCAGTTTTTGTTGAGATCAAATTCCATAGAACCAGGAACGTCCGGTACTGCCAGATGCCGCCACTCCGCCTGTCCCACTGCTATTTGATTGCCTTCCAGGTCGAATATCACAGCCCGAATACTTCCGGTGCCTGCATCCAGCGCCATCAGGTAGTACTTTGATTCTGAAAGGGTAAAGAGTCGAGCCATTAGATTATCCTCGGCTTATGCGTTCTGTCTGTTCCTCTATACGTTCTCCATCATTCCCGGTAATAAGGTCATGCAAATTTAACTACGTAAAATCGCCGCTGCTGTGTCCTGATCGGTAACCAGTGCGTTGATATAACCGCCTTTCATTGCAGCGGCAATTGCTTCGGCTTTATTTTCTCCCCCTGCCACGCCAACCCGGACGGGTATGGTCTTCAGCGCGCTTAAAGGTAAGCCAATCAGTTCGTTATGTATTTTGATATTCGTGACAAC  >  NC_000913/1599987‑1600479

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: ‑