Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,018,586	G→A	L418L (CTG→CTA)	rmuC →	putative recombination limiting protein RmuC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,018,586	0	G	A	96.3%	84.1 / ‑3.8	28	L418L (CTG→CTA)	rmuC	putative recombination limiting protein RmuC
Reads supporting (aligned to +/- strand):  ref base G (1/0);  new base A (9/17);  total (11/17)
Fisher's exact test for biased strand distribution p-value = 3.70e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.33e-01

AAAAACAACATCATGCTGGTTAGCCCGACTACGCTGCTGGTGGCGCTGCGCACTATCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTGGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTT  >  NC_000913/4018341‑4018835                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                          aaaaaCAACATCATGCTGGTTAGCCCGACTACGCTGCTGGTGGCGCTGCGCACTATCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAgcgc                                                                                                                                                                                                                                                       >  2:102030/1‑250 (MQ=255)  aaaacaccctcctGCTGGTTAGCCCGACTCCGCTGCTGGTGCCGCTGCGCACTATCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCACCGTCTCGCCAAACCGCAGGATAATTATCGGCAGGCACTGACAAAACTCTCTTCAGGTCCCGGACATGTGCTAGCgcac                                                                                                                                                                                                                                                     >  2:170033/13‑250 (MQ=255)            catGCTGGTTAGCCCGACTACGCTGCTGGTGGCGCTGCGCACTATCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCg                                                                                                                                                                                                                                            <  2:277363/250‑1 (MQ=255)               gCTGGTTAGCCCGACTACGCGGCTGGTGGCGCTGCGCACTATCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGGTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACGCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTc                                                                                                                                                                                                                                        <  2:161769/251‑1 (MQ=255)                                                gcgcACTATCGCCAACCTGGGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCATGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGTCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGAt                                                                                                                                                                                                         <  1:170033/249‑1 (MQ=255)                                                  ccACTATCGCCAACCTGCGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACTTGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAAt                                                                                                                                                                                                     <  2:108783/250‑1 (MQ=255)                                                    aCTATCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGTAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATcc                                                                                                                                                                                                   <  1:222745/251‑1 (MQ=255)                                                       aTCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCg                                                                                                                                                                                                  <  1:31405/249‑1 (MQ=255)                                                          gCCAACCTGTGGCGTTATGAGCATCAAAGCCGACACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGGTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGAttt                                                                                                                                                                                             >  2:195372/1‑251 (MQ=255)                                                            cAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTGGAGCAGGCAGAAGCGTTTCGCGGTTTCGGAGTAGAAATTAAACGCGCGATTAATCCGGATTTgg                                                                                                                                                                                           >  2:104218/1‑251 (MQ=255)                                                             aaCCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGc                                                                                                                                                                                          <  1:332000/251‑1 (MQ=255)                                                                       gTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCGGAACAGGCg                                                                                                                                                                                <  2:305895/251‑1 (MQ=255)                                                                                             cGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGATCCAGGATGAAGAGTATc                                                                                                                                                          <  2:54185/251‑1 (MQ=255)                                                                                                     aaaTCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTtcgg                                                                                                                                                  >  1:360313/1‑251 (MQ=255)                                                                                                             gATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGAAATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGGAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTTGGGGTAGAAATTAATCGCGAGATTCATCCGGCTTTCACTGAAACGGCGGTGAGCCAGGATAGAGAGTaacggacttgggtggttcc                                                                                                                                          >  2:84252/1‑233 (MQ=255)                                                                                                                           gCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAatg                                                                                                                            <  1:64576/251‑1 (MQ=255)                                                                                                                                aCGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATGATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAAtgatga                                                                                                                        <  2:232502/250‑1 (MQ=255)                                                                                                                                                  tCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCgatga                                                                                                      <  1:326318/250‑1 (MQ=255)                                                                                                                                                               gTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATcagc                                                                                        <  1:82605/251‑1 (MQ=255)                                                                                                                                                                          gTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAg                                                                             <  2:97394/251‑1 (MQ=255)                                                                                                                                                                                     gACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACGCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGag                                                                  <  1:282533/251‑1 (MQ=255)                                                                                                                                                                                          aGCGCAGGATCATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGAGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGCTGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAACTTAACAACGCGATGATGAATATAAACCGCAGTCACGCTAGCCCATTGGGagtattt                                                             >  2:296507/1‑248 (MQ=255)                                                                                                                                                                                                             caggcaATGAAAAACCTCACTTCAGGGCGCGGTACTATGCCAGAGCAGGCAGAAGCGTTTCGAGGTTTAGGAGTAGAAATTACACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTAAGCCAGGGTGCAGAGAATGGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAACTTATCAACGCGCTGATGAATCTAATCAGCAGTCGCGCTAGCCCCTTGGGAGTAGTTAAGACGGGTAGAAATCt                                            >  2:35311/1‑249 (MQ=255)                                                                                                                                                                                                                          aaCTCTCTTCCGGGCGCGGAACCGTGAACGCGCAGGCCCAAGCGTTTCGCGGTTTAGGCGTAGAAATTAAACGCGAGATTAATCCGAATTTAGCTGAAAAGACGGCGAGCCAGGGTGACGAGTATCGACTTCGGTCGCATCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGGATATAATCAGCAGTCGAGCTAGCCCCTTGGGAGAAGTTAAGCCGGGTacacaactagggactcgtcgccc                             >  2:144370/1‑229 (MQ=255)                                                                                                                                                                                                                                ctTCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGCAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGGGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCCAGGGCATCGACGCCCCATCTg                       >  2:200174/1‑251 (MQ=255)                                                                                                                                                                                                                                  tCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCTGTTTAGGAGTAGAAATTAAACGCGAGATTAAGCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAAGCTAGTGCATCGACGCCCAATcgg                       <  2:138004/249‑3 (MQ=255)                                                                                                                                                                                                                                  tCAGGGCGCGGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGt                      <  2:360313/250‑1 (MQ=255)                                                                                                                                                                                                                                        cgcgGAAATGTGCTAGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGGAGAAATCTAGGGCATCGACGCCCAATCTGTTACACtt               >  2:100438/1‑251 (MQ=255)                                                                                                                                                                                                                                                     gggCGCAGGCAGAAGCGTTTCGCGGTTTAGGGGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTGCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGGGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAAtttt  <  1:194090/250‑1 (MQ=255)                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                          AAAAACAACATCATGCTGGTTAGCCCGACTACGCTGCTGGTGGCGCTGCGCACTATCGCCAACCTGTGGCGTTATGAGCATCAAAGCCGCAACGCCCAGCAAATCGCCGATCGTGCCAGCAAGCTGTACGACAAGATGCGTTTGTTCATCGATGACATGTCCGCGATTGGTCAAAGTCTCGACAAAGCGCAGGATAATTATCGGCAGGCAATGAAAAAACTCTCTTCAGGGCGCGGAAATGTGCTGGCGCAGGCAGAAGCGTTTCGCGGTTTAGGAGTAGAAATTAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTT  >  NC_000913/4018341‑4018835

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑