Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,584,092	G→A	intergenic (‑133/+115)	safA ← / ← ydeP	two‑component system connector SafA/putative oxidoreductase YdeP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,584,092	0	G	A	100.0%	84.2 / NA	29	intergenic (‑133/+115)	safA/ydeP	two‑component system connector SafA/putative oxidoreductase YdeP
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (19/10);  total (19/10)

CCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCATAGG  >  NC_000913/1583845‑1584338                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                       ccGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAAttt                                                                                                                                                                                                                                                     <  1:383821/251‑1 (MQ=255) cagAAAAAATGGCTATCAACGTACGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTCCTTTATAGATGTCTCTTTGCGAGATTTTGTTATTCACTGTTGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACATTATATATCGTTACTCAGTATGCTTAATATAACAGGCTGGAGAGAAGAGGCAATAGGGCTTGTGCTTCAGTACTGAGCTGTGTTACTTACAGATGAAGGCGGAAAttt                                                                                                                                                                                                                                                     >  2:202839/3‑251 (MQ=255)   gAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTtat                                                                                                                                                                                                                                                   >  2:271200/1‑251 (MQ=255)                              aGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGGCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGTTAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGTAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTttaatttaat                                                                                                                                                                                                                        <  2:444647/251‑1 (MQ=255)                                 aataaGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATcc                                                                                                                                                                                                                      <  1:116190/250‑1 (MQ=255)                                           ccataaTTGTAGTCATGATTTCTTTATATTTGTCTCTTTGCGTGATTTTGGTTTTCACTGTGGTTGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCata                                                                                                                                                                                                           <  2:30493/247‑3 (MQ=255)                                                aTTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCg                                                                                                                                                                                                      <  1:371026/251‑1 (MQ=255)                                                                                ttGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGAACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCtgt                                                                                                                                                                      >  2:627554/1‑251 (MQ=255)                                                                                    gTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTATTCTGCTGTGCgg                                                                                                                                                                  >  2:707305/1‑251 (MQ=255)                                                                                       aTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATg                                                                                                                                                               >  1:522552/1‑251 (MQ=255)                                                                                            gTTTTTCACTGGGGTCGCATGCATTTCAAATATGTTTATTTAGCGGAGAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGAcagc                                                                                                                                                          <  2:632384/251‑1 (MQ=255)                                                                                                   aCTGTGGTCGCATGCATTTCAAATATGTTTAGTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCTgaagaa                                                                                                                                                   <  1:493478/251‑1 (MQ=255)                                                                                                            gcatgcatTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATgaga                                                                                                                                             >  1:528513/1‑248 (MQ=255)                                                                                                                     tCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAAt                                                                                                                                 >  1:682889/1‑251 (MQ=255)                                                                                                                              tttatttaGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGtt                                                                                                                        >  1:470725/1‑251 (MQ=255)                                                                                                                                       cGGATAACGTTAAAAATCGTTAATCAGAATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCa                                                                                                                >  1:75804/1‑250 (MQ=255)                                                                                                                                                                        tAATATAACAGGCTGGAGAAAAGATGAAATAGGACTGGTGCTTCAGTACTGAGAGGAGTTTCTTACAGCTGTAGGCAGAAAGTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTTCGAAATAATAGTCAATGAGGAATTCTTCTGCGGTGCGGATGACATCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTGCTAAGTCAACCGGAATACTTTTATAGCCAGTATTGCCACt                                                                                <  2:798618/249‑1 (MQ=255)                                                                                                                                                                          atatAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAAt                                                                            >  1:342301/1‑251 (MQ=255)                                                                                                                                                                             taacagaatggtgaAAAGAGGAAATAGGACTAGTGCTTCAGAACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGAATGTAGTTTAATTTAATCCCTGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCTACTTAGTgg                                                                          >  2:532594/13‑250 (MQ=255)                                                                                                                                                                                          aaaaGTGGAAATAGGCCTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGAATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCAACTTAATGGATCGGGGTTAtaa                                                             >  2:283978/1‑248 (MQ=255)                                                                                                                                                                                                  aaaTAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGc                                                    >  1:785992/1‑251 (MQ=255)                                                                                                                                                                                                    aTAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGTATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCAt                                                  <  1:291797/251‑1 (MQ=255)                                                                                                                                                                                                     tAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCAtg                                                 >  1:289515/1‑251 (MQ=255)                                                                                                                                                                                                                     gTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGCTGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTACTGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGa                                  >  2:714471/1‑250 (MQ=255)                                                                                                                                                                                                                              ggAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGGGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGGTTCTGGAAAATAgttc                         >  2:441311/1‑247 (MQ=255)                                                                                                                                                                                                                               gAGTTTCTTACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCAc                       <  2:637953/251‑1 (MQ=255)                                                                                                                                                                                                                                      ttACAGCTGTAGGCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCGTTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGATTATCAAGTGTTAGCATGTGATTCAATTCTGGAAAATAGGTCACCAGTg                  >  1:149924/1‑249 (MQ=255)                                                                                                                                                                                                                                                 ggCAGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGACATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCAt     >  2:603139/1‑251 (MQ=255)                                                                                                                                                                                                                                                    aGAAATTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGTTGACAGCAGAAGTAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCATAgg  >  2:60931/1‑251 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                       CCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTTCAGTACTGAGCGGAGTTTCTTACAGCTGTAGGCAGAAGTTTATATCTTATAGTATGTAGTTTAATTTAATCCATGTGAGCAAATTGCGAAATAATAGTCAATGAGGAATTCTTCTGCTGTGCGGATGACAGCAGAAGAAATGAGAAGAGGCATTAATTTGATGGTTCTAATTCAACCGGAATACTTTTATAGCCAGGAATGCCACTTAATGGATCGTGGTTATCAAGTGTTAGCATGTGATTCGATTCTGGAAAATAGGTCACCAGTGAGCGGTCAGCCATAGG  >  NC_000913/1583845‑1584338

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑