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%	93.4 / NA	27	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 (12/15);  total (12/15)

GAATATTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCTTAAAT  >  NC_000913/1597137‑1597602                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                               gAATATTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTttatta                                                                                                                                                                                                                          <  1:343366/250‑1 (MQ=255)     atTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCATTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCa                                                                                                                                                                                                                      <  2:18680/250‑1 (MQ=255)         tttGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGACATTCAATCGAGGAATCATTATTTTTTATTAGCCACTctc                                                                                                                                                                                                                 >  2:478296/1‑249 (MQ=255)                  aaTCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCtttt                                                                                                                                                                                                        <  1:38447/251‑1 (MQ=255)                      aGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATGAGCCACTCGCCACCCTTTTCAAc                                                                                                                                                                                                    <  1:307104/251‑1 (MQ=255)                       gTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACg                                                                                                                                                                                                   >  1:128691/1‑251 (MQ=255)                             tattGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACACTTTTCAACGACAAcc                                                                                                                                                                                             >  1:313604/1‑251 (MQ=255)                              attGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATAACGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCt                                                                                                                                                                                            >  1:576446/1‑251 (MQ=255)                                       atTGACTGTGCCTTTACCGAACTTCCCATTATACAGTCTGCGGTCCGTGATAACAGATTCTTGACCCTGCACATTCATGGTTCCGATACCGGTTGCATTTCCACCCATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCCAATAGTCTCCTGCCCAGTTCCTTGATGACCAACTTGAAATTCAATCGAGTAATCATTATTTTTTATGAGCCCCTCTCCACCCTTTTCATCTACATCCTGGCCATTAc                                                                                                                                                                                   <  2:297556/251‑1 (MQ=255)                                                         gAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCt                                                                                                                                                                  >  1:273621/1‑250 (MQ=255)                                                             tatCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTGGCCTCCCCAGTTCCTTGTTTCCCAATTTGAAATTCAATCGAGGAATCTTTATTTTTTATTACCCACTCGCCACCCTTTTCAACGACACCCTGCCCATTCCTGCCCGCCTGATAGCCTAAAAt                                                                                                                                                             >  1:12105/1‑251 (MQ=255)                                                                          ggcTGCGTACCGTGATGACAGAGGCTTGATCCTGCACATGCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTGCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACGCGCCACCCTTTTCAACGACAGCCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGaa                                                                                                                                                <  1:512788/249‑1 (MQ=255)                                                                              gCGTACCGTGATGACAAAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCAGTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTc                                                                                                                                             <  2:234152/250‑1 (MQ=255)                                                                                             atagccTTGATCCTGCACATTCAGGGTTCCGAAACCGGTGGCATTGCCACCGATAATCGTTTTTTCAGCCGTAACCAACGCCCCCTCGCGTATAGTCTCCTCCCCAGGTCCTTGATTACCAATTGGAAATTCAATCGAGGAATCATTATTTTCTATTAGCCACTCGCGTGCCTTTTCAACTACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTTACGTAACCCTTAt                                                                                                                             <  1:393348/246‑1 (MQ=255)                                                                                             agagTCGTGATCCTGCACATTCAGGGTTCAGCTTCACGTGACATTGCGAACGCTACTCGTATTTTCAGCCGTCACCAACCCCCCCTCGCGAATAGTCGCATCCCCAGTTCCTTGATTACCAATTTGACCTTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGCCAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCATTAt                                                                                                                             >  2:33097/1‑251 (MQ=255)                                                                                                                   aGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGGATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCTTAATATTTAATGAACCtgt                                                                                                       <  1:439561/251‑1 (MQ=255)                                                                                                                          cGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGGCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAg                                                                                                <  1:306372/251‑1 (MQ=255)                                                                                                                              aCCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTa                                                                                             <  1:435413/250‑1 (MQ=255)                                                                                                                                           ccACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTgg                                                                                                                                                                                          >  2:142134/1‑144 (MQ=255)                                                                                                                                           ccACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTgg                                                                                                                                                                                          <  1:142134/144‑1 (MQ=255)                                                                                                                                                                                    gcgAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCg                                      >  1:378444/1‑251 (MQ=255)                                                                                                                                                                                           gTCGCCTCCCCAGTCCCTTGATTACCAATTTGAAATTAAACCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTT‑CAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGCCCTCTCCCTCAACATTGACCGTCCCGACg                              <  1:95649/251‑1 (MQ=255)                                                                                                                                                                                               ccTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGcct                           <  2:223777/251‑1 (MQ=255)                                                                                                                                                                                                                  aCCAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATc        >  2:577502/1‑251 (MQ=255)                                                                                                                                                                                                                    cAATTTGAAATTCAATCGAGGACTCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCATAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCtt      >  2:517192/1‑251 (MQ=255)                                                                                                                                                                                                                    cAATTTGAAATTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTCTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATGTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCtt      <  2:319764/251‑1 (MQ=255)                                                                                                                                                                                                                         tGAAACTCAATCGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCTTAAAt  >  2:294053/1‑250 (MQ=255)                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                               GAATATTCTTTGTTATTAATCAGTCCATTATTGGAAATATTGACTGTGCCATTACCGAAATATCCATTATAGAGTCTGCGTACCGTGATGACAGAGTCTTGATCCTGCACATTCAGGGTTCCGATACCGGTGGCATTGCCACCGATAATCGTATTTTCAGCCGTAACCAACCCCCCCTCGCGAATAGTCGCCTCCCCAGTTCCTTGATTACCAATTTGAAATTCAATTGAGGAATCATTATTTTTTATTAGCCACTCGCCACCCTTTTCAACGACAACCTGGCCATTACTGCCCGCCTGATAGCCTAAAATGGCGACGATTGAACTCGTGACGTAACCCTTATCCGTAATATTTAATGAACCTGTGCCATAGCTACCTATTTCGAATAATTCGGTCGTCAGAACAGAGTCCTCTCCCTCAACATTGACCGTCCCGACGCCTCCTGTCGAAGAACCTAATCTTAAAT  >  NC_000913/1597137‑1597602

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑