Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,597,364	T→C	intergenic (‑4922/+1253)	hipB ← / ← lsrK	antitoxin/DNA‑binding transcriptional repressor HipB/autoinducer‑2 kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,597,364	0	T	C	100.0%	122.6 / NA	35	intergenic (‑4922/+1253)	hipB/lsrK	antitoxin/DNA‑binding transcriptional repressor HipB/autoinducer‑2 kinase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (18/17);  total (18/17)

TCCTGAACGCCCACCAATGAATATTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCTTAAATAG  >  NC_000913/1597119‑1597604                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                 tCCTGAACGCCCACCAATGAATATTCTTTGTTATTAATCAGTCCATTCTTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAgg                                                                                                                                                                                                                                              >  2:36924/1‑250 (MQ=255)  ccTGAACGCCCACCAATGAATAGTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTTATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCATCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAAGCGAGGaa                                                                                                                                                                                                                                            <  2:322517/251‑1 (MQ=255)      aaCGCCCACCAATGAATATTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCat                                                                                                                                                                                                                                        <  1:486116/251‑1 (MQ=255)         gCCCACCAATGAATATTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCattat                                                                                                                                                                                                                                     <  1:543794/251‑1 (MQ=255)                           tttGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGc                                                                                                                                                                                                                   >  1:190366/1‑251 (MQ=255)                               ttattaATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATATAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTTAACTTATATCGAGGAATCATTATTTTTTATTAGCCACTCGCCAcc                                                                                                                                                                                                               >  2:9272/1‑251 (MQ=255)                                 attaATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCAccc                                                                                                                                                                                                              <  1:201547/250‑1 (MQ=255)                                         gTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGCTAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATAATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACg                                                                                                                                                                                                     >  1:430424/1‑251 (MQ=255)                                           ccATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCCCCCTTTTCAACGAc                                                                                                                                                                                                   >  2:55822/1‑251 (MQ=255)                                                                                           agTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTg                                                                                                                                                    >  2:512519/1‑250 (MQ=255)                                                                                               tGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTc                                                                                                                                               >  1:471625/1‑251 (MQ=255)                                                                                                       gttatgaacgcgTCTTGATCCTGTACATTCAGGGTTCCGATACCGCTGGCATTTCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTACCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAACCATTATTTTTTATTAGCCCCGCGCCACCCTTGTCAACGACAACCTGGGCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTa                                                                                                                                       <  1:26816/240‑1 (MQ=255)                                                                                                       gTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGCAATTCAATCGAGGAATCATTCTTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAACATGGCGCCGATTGAACTCGTGCCGt                                                                                                                                        >  2:188500/1‑250 (MQ=255)                                                                                                          atgaCAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGCACTCGTGACGTAAcc                                                                                                                                    >  2:440127/1‑251 (MQ=255)                                                                                                          atgaCAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAAcc                                                                                                                                    <  1:48359/251‑1 (MQ=255)                                                                                                             aCAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCtt                                                                                                                                 <  1:122931/251‑1 (MQ=255)                                                                                                             aCAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCtt                                                                                                                                 <  1:102034/251‑1 (MQ=255)                                                                                                                 agTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATcc                                                                                                                             <  1:542140/251‑1 (MQ=255)                                                                                                                          ccTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCGCTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATAttt                                                                                                                    >  2:430249/1‑251 (MQ=255)                                                                                                                              cacaTTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCATCGCGAATAGTAGCCTCCCCAGTTACTTGATTACCACTTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCATAAAATGGCGACGCTTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATg                                                                                                                >  1:245880/1‑251 (MQ=255)                                                                                                                               acaTTCAGGGTTCCGATACCGGTTGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCCCCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACGCGTGACGTAACCCTTATCCGTAATATTTAATGa                                                                                                               <  2:172120/251‑1 (MQ=255)                                                                                                                                    aaGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCt                                                                                                           <  2:394867/249‑1 (MQ=255)                                                                                                                                             gATACCGGTGTCAGTGCCACCTATAATCGTATTTTCAGTCGTACCCAACCCCCCCGCGCGAATAGTCGCCTCCCCAATTCCTGGATTACCAATTTGACAATCATTCGAGCAATCATTATTTTTTATTCGCCACTCGCCACCCTTTTCAACGACAACCTGGCCTTTTCGGCACTCCTGATAGCCGAAAATGGCGACGATTGAACTCGTTACGTAACCCTTAGCCGTAATATCTAATTAACGTGTTCCATAGc                                                                                                 <  2:581055/251‑1 (MQ=255)                                                                                                                                                        cATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCg                                                                                      <  1:112586/251‑1 (MQ=255)                                                                                                                                                         attgcacccGATAATCGTCTTTTCAGCAGTAACCAACCCCCCCTCGCGAATAGTCGCATCCCCCGTTCCTTGATTACCAATTTGAAATTCAATCGAGGTATCATTATTTTTTATTAGCCACTCTCCACCCTTTTCAACGACAACCTTGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTTTGCCATAGCTACCTATTTCgc                                                                                     >  2:392218/8‑250 (MQ=255)                                                                                                                                                                                 aGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGATAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGt                                                             >  2:187912/1‑251 (MQ=255)                                                                                                                                                                                   ccGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTcc                                                           >  2:139566/1‑251 (MQ=255)                                                                                                                                                                                     gTAACCAACAACCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCctc                                                         >  2:563274/1‑251 (MQ=255)                                                                                                                                                                                      tAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTTAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCGGACCATTACt                                                                                                                                                                                    <  2:366293/127‑1 (MQ=255)                                                                                                                                                                                      tAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGCGGAAAAATTATTTTTTATTAGCCCCTCGCAACCCTTTTCAACGACAACCTGGCCATTACt                                                                                                                                                                                    >  1:366293/1‑127 (MQ=255)                                                                                                                                                                                                  ccTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTg                                            >  2:28733/1‑251 (MQ=255)                                                                                                                                                                                                     cgcgAATAGTCGCCGCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTAACCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGAc                                          <  1:9272/250‑1 (MQ=255)                                                                                                                                                                                                             gTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGAc                                 <  1:55822/251‑1 (MQ=255)                                                                                                                                                                                                                                        aTTTGAAATTAAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCTTa       >  1:437903/1‑250 (MQ=255)                                                                                                                                                                                                                                            gAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCTTAAATAg  <  1:28733/251‑1 (MQ=255)                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                 TCCTGAACGCCCACCAATGAATATTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCTTAAATAG  >  NC_000913/1597119‑1597604

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: ‑