Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,169,836	A→G	L180P (CTG→CCG)	ldtC ←	L,D‑transpeptidase LdtC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,169,836	0	A	G	97.0%	115.1 / NA	33	L180P (CTG→CCG)	ldtC	L,D‑transpeptidase LdtC
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base G (20/12);  minor base T (0/1);  total (20/13)
Fisher's exact test for biased strand distribution p-value = 3.94e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

CTTCAACCAGACGCGCACCGTTTGGTTCGGCAGAGACTTTTATCGGAGTGTTGATGATATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCAGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTACCCGGCGGGTAGTAATAGAGACGCAGCTCCGCAATGTTGATCACAATGCCTTCGCGCGG  >  NC_000913/1169600‑1170077                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                  cTTCAACCAGACGCGCACCGTTTGGTTCGGCAGAGACTTTTATCGGAGTGTTGATGATATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACt                                                                                                                                                                                                                                     >  2:462135/1‑251 (MQ=255)         aGACGCGCACCGTTTGGTTCGGCAGAGACTTTTATCGGAGTGTTGATGATATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAgg                                                                                                                                                                                                                             >  1:141872/1‑251 (MQ=255)          gACGCGCACCGTTTGGTTCGGCAGAGACTTTTATCGGAGTGTTGATGATATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGc                                                                                                                                                                                                                            <  2:157522/251‑1 (MQ=255)                             ggCAGCGACTTTTATCGAAGTGTTGATGATATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATACCGCAGACGAATACAGCAAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCtt                                                                                                                                                                                                         >  2:486162/1‑251 (MQ=255)                                               aGTGTTGATGATATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATTCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTcc                                                                                                                                                                                                                 <  1:451315/225‑1 (MQ=255)                                               aGTGTTGATGATATTCACTTTGGAGCATGGGGTGACCTGGCTAAAGAGTGTTTTGATCTCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGCCATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCCACTCCATTcc                                                                                                                                                                                                                 >  2:451315/1‑225 (MQ=255)                                                      atgatATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATAGTCATCCCGCAGACGAATACAGCACGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGAACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGAGCTTGTTAACGGGCGCGGATGTTTGCCGt                                                                                                                                                                                >  1:495107/1‑251 (MQ=255)                                                        gatATTAACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCCGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTg                                                                                                                                                                              >  2:479919/1‑251 (MQ=255)                                                          tatTCACTTTGGTGACTGGGGTGACCTGGCTAAAGCGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCACTGCCGCAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGATGGc                                                                                                                                                                            >  2:53321/1‑251 (MQ=255)                                                                      tGCCTGGGGTGACCTGGCTAACGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTggg                                                                                                                                                                >  1:111292/1‑251 (MQ=255)                                                                                gACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCCTGAGGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCGATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGACGTTGGCGACCAGGTTGGGTTTGCACGtt                                                                                                                                                      >  2:137987/1‑251 (MQ=255)                                                                                          aaGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAAc                                                                                                                                            >  1:112723/1‑251 (MQ=255)                                                                                            gagTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTCCCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACgg                                                                                                                                          <  1:42283/251‑1 (MQ=255)                                                                                             agTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACggt                                                                                                                                         >  1:90399/1‑251 (MQ=255)                                                                                                                     aGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCgt                                                                                                                 >  2:48229/1‑251 (MQ=255)                                                                                                                          aaTACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTcac                                                                                                            <  1:479919/251‑1 (MQ=255)                                                                                                                                             cGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATAcc                                                                                         >  1:112940/1‑251 (MQ=255)                                                                                                                                                         ccGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGTTTATCCGGTCCAGCCGGCACTACCGCAGGCAACGCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTGTGCACGTTTGTCTGAAACGGTTGTCACCATTGTCGGGGTCAGCGTGTCACCACCTAACTTACCAATACCTATTGGATacac                                                                             <  1:33921/251‑1 (MQ=255)                                                                                                                                                           gAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACgg                                                                           >  2:286839/1‑251 (MQ=255)                                                                                                                                                                   cGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGa                                                                    >  1:265228/1‑250 (MQ=255)                                                                                                                                                                        gTACCAGGAAGCAAATAAACGACAGCGTGGGCCGCCAGACGAATCGCAGGAAGGCTCAGTGGGTTATCTTGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTGATAACGGGCGCGGAGGTTTGCCGTTGGCGTCCAGTTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCCCCATTGTTGGTGTCAGCGTGTCACCACCTAACTGTGCAATACCTATTTTATACCTGGTTGCCGAAttttt                                                              <  2:429458/251‑1 (MQ=255)                                                                                                                                                                         tACCATGACGCAAATAACCGCCGCCATAGGCCGACCGACGAATCGCATGATGGCCCATTGGGCTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGCGCGCGGGTGTTTGCCGATGGCGTCCAGGTTGGGTTTGCAAGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTACGCGTGTCACCACCCACCTGACCAATACCTATTgggtccacccttaccacccttttc                                                             >  2:76591/1‑229 (MQ=255)                                                                                                                                                                          aCCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTa                                                             <  1:213284/250‑1 (MQ=255)                                                                                                                                                                                   cAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTTGGTTATCCGGTCCAGCCGGCACTACCGCAGTCAACTCAAGTCCCTGTGCTTGATAACGGGCGCGGATGTTTGCCGTTGGc                                                                                                                                                                            <  2:246855/130‑1 (MQ=255)                                                                                                                                                                                   cAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGc                                                                                                                                                                            >  1:246855/1‑130 (MQ=255)                                                                                                                                                                                     aaTAAACGCCGCCAAAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCCGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGGGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTACCCGGCGGgt                                                   >  2:432141/1‑249 (MQ=255)                                                                                                                                                                                        aaaCGCCGCCATAGGCCGCCTGACGAAGCGCATGATGGCCCAGTTGGTTATCCGGTCCAGCCGGCACTGCCGCAGGCAACTCAAGTCCCTGTGCTGTATAACGGGCGCGGATGTGTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGGGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGaa                                                                   <  1:454486/230‑1 (MQ=255)                                                                                                                                                                                        aaaCGACGCCATAGGCCGCCAGGCGCATCGCATGGTGGCCCCTTGGGTTCTCCGGTCCAGCCGGCACTACCGCAGTCCAATCAATTCCCTGTGCTTTCTCACGGGCGCGGCTGTTTGCCGTTGGCGTCCAGCTTGGGCTTGCCCGTTTGTCTGAAACGGTGGTCACCGTTGCCGGTGTCAGCGTGTCCCCCCCTAACTGACCAATACCTATTGGATACACGGTTCCCgca                                                                   >  2:454486/1‑228 (MQ=255)                                                                                                                                                                                               gccATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTACCCGGCGGGTAGTAATAGAGAc                                       <  1:157376/251‑1 (MQ=255)                                                                                                                                                                                                              aCGAATCGCATGATGGCCCATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTACCCGGCGGGTAGTAATAGAGACGCAGCTCCGCAATGt                        <  2:183976/251‑1 (MQ=255)                                                                                                                                                                                                                  agataacgatgGCCCACTGGGTTATCCGGTCCAGCCTGCACTACCGCAGGCAACTCAATTTCCTTTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTCTGTCTGAAACGGTGGTCACCATTGGCGGTGTCAGCGTGTCCCCACCTAACTGTCCAATACCTATTGGATACACGGGTACCGAATTTTTACCCGGCGGGTAGTAATAGAGACGCAGCTCCTCAATGTTGAt                    <  2:73634/244‑1 (MQ=255)                                                                                                                                                                                                                              cccATTGGGTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTACCCGGCGGGTAGTAATAGAGACGCAGCTCCGCAATGTTGATCACAATGCCTTc        <  1:462135/251‑1 (MQ=255)                                                                                                                                                                                                                                    gggTTATCCGGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTACCCGGCGGGTAGTAATAGAGACGCAGCTCCGCAATGTTGATCACAATGCCTTCGCgcgg  >  2:126963/1‑251 (MQ=255)                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                  CTTCAACCAGACGCGCACCGTTTGGTTCGGCAGAGACTTTTATCGGAGTGTTGATGATATTCACTTTGGTGCCTGGGGTGACCTGGCTAAAGAGTGTTTTGATATCGTCATCCCGCAGACGAATACAGCCAGAACTTACCCGCATGCCAATGCCGAAATCGGCGTTCGTACCATGAAGCAAATAAACGCCGCCATAGGCCGCCAGACGAATCGCATGATGGCCCATTGGGTTATCCAGTCCAGCCGGCACTACCGCAGGCAACTCAATTCCCTGTGCTTTATAACGGGCGCGGATGTTTGCCGTTGGCGTCCAGGTTGGGTTTGCACGTTTGTCTGAAACGGTGGTCACCATTGTCGGTGTCAGCGTGTCACCACCTAACTGACCAATACCTATTGGATACACGGTTACCGAATTTTTACCCGGCGGGTAGTAATAGAGACGCAGCTCCGCAATGTTGATCACAATGCCTTCGCGCGG  >  NC_000913/1169600‑1170077

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑