Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,312,566	T→C	R142R (AGA→AGG)	alsR ←	d‑allose‑inducible als operon transcriptional repressor, autorepressor, repressor of rpiR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,312,566	0	T	C	100.0%	145.7 / NA	38	R142R (AGA→AGG)	alsR	d‑allose‑inducible als operon transcriptional repressor, autorepressor, repressor of rpiR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (19/19);  total (19/19)

TAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCA  >  NC_000913/4312434‑4312692                                                                                                                                     |                                                                                                                               tAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGcc                                                                                                                          >  1:173213/1‑139 (MQ=255) tAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGcc                                                                                                                          >  1:111859/1‑139 (MQ=255)       cGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTCGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAg                                                                                                                    >  1:56837/1‑139 (MQ=255)            cGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGaaaaa                                                                                                               >  1:146537/1‑139 (MQ=255)            cGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGACACCGTACAAATCCCGCTGCCTGGCCTGATAGaaaaa                                                                                                               >  2:80329/1‑139 (MQ=255)                         gatgTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACgg                                                                                                  <  1:372578/139‑1 (MQ=255)                            gtgAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTgg                                                                                               >  1:496470/1‑139 (MQ=255)                              gAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGAt                                                                                             >  2:334462/1‑139 (MQ=255)                               aGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGc                                                                                                                           >  1:85576/1‑108 (MQ=255)                               aGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGc                                                                                                                           <  2:85576/108‑1 (MQ=255)                                  aTCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCtca                                                                                         >  1:470356/1‑139 (MQ=255)                                   tCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGACACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCtcat                                                                                        <  1:80329/139‑1 (MQ=255)                                        aTAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACg                                                                                   <  2:496470/139‑1 (MQ=255)                                                 aCAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATc                                                                          >  1:38374/1‑139 (MQ=255)                                                 aCAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATc                                                                          >  1:436111/1‑139 (MQ=255)                                                     cGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAgcggg                                                                                                          >  2:29899/1‑103 (MQ=255)                                                     cGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAgcggg                                                                                                          <  1:29899/103‑1 (MQ=255)                                                     cGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACt                                                                      >  1:398307/1‑139 (MQ=255)                                                       tACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGa                                                                    <  1:412859/139‑1 (MQ=255)                                                       tACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGa                                                                    >  2:270171/1‑139 (MQ=255)                                                         cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  1:334462/139‑1 (MQ=255)                                                         cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  2:38374/139‑1 (MQ=255)                                                         cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  2:113310/139‑1 (MQ=255)                                                         cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  1:270171/139‑1 (MQ=255)                                                                   cAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATg                                                        <  2:420747/139‑1 (MQ=255)                                                                               cTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTg                                            <  1:346216/139‑1 (MQ=255)                                                                                 gTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGAt                                          <  1:164503/139‑1 (MQ=255)                                                                                    cATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGtt                                       <  2:111859/139‑1 (MQ=255)                                                                                          cacaGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              <  2:92961/126‑1 (MQ=255)                                                                                          cacaGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              >  1:92961/1‑126 (MQ=255)                                                                                            caGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGATAAATACCt                               >  1:295624/1‑139 (MQ=255)                                                                                               aTAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTAt                            <  1:222609/139‑1 (MQ=255)                                                                                                              ccGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTgcg             >  1:304144/1‑139 (MQ=255)                                                                                                                ggCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTgcggc           <  2:56837/139‑1 (MQ=255)                                                                                                                       tACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              <  2:259821/97‑1 (MQ=255)                                                                                                                       tACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              >  1:259821/1‑97 (MQ=255)                                                                                                                       tACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtcat    >  1:178298/1‑139 (MQ=255)                                                                                                                         cAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtcatca  <  2:470356/139‑1 (MQ=255)                                                                                                                                     |                                                                                                                               TAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCA  >  NC_000913/4312434‑4312692

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑