Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,313,027	T→G	intergenic (‑36/‑323)	alsR ← / → rpiB	DNA‑binding transcriptional repressor AlsR/allose‑6‑phosphate isomerase/ribose‑5‑phosphate isomerase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,313,027	0	T	G	100.0%	71.4 / NA	21	intergenic (‑36/‑323)	alsR/rpiB	DNA‑binding transcriptional repressor AlsR/allose‑6‑phosphate isomerase/ribose‑5‑phosphate isomerase B
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (11/10);  total (11/10)

TAACTATCATCGCTTCAGATACCGCCAGAGCTTCTGCGACATCTTTAATTGCGGGTGCACAACTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTATATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATGTTGCTGGATGGTGAGTGTCTTTAACGCTATTGCGCTGTCAGATGTAACTCTGTAAAACAGATCAGGA  >  NC_000913/4312796‑4313259                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                         tAACTATCATCGCTTCAGATACCGCCAGAGCTTCTGCCACTTCTTTAATCGCCGGTGCACAACTCCCGTTACCGGGCTTGAGTACCCACTCCACGACGCGGCTTTCATTTTCTGTCAATCCTTCCTGCTTCACTCGCAGGTACGGCGCTAACCCTATACCGCTCGGAAGCGCTGAATCAAACTCTGCCTGGCCCATCACGTTCTCTTGTCCTTCAA‑TTGAAGACGCAAATAGATCACCACAGCAAGAAc                                                                                                                                                                                                                         >  1:219501/1‑249 (MQ=255)      atcatcGCTTCAGATACCGCCAGAGCTTCTGCGACATCTTTAATTGCGGGTGCACAACTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGGTCTCTTGTCCTTGAA‑TTGAAGACCCCACTAGATCACCGCAGCAAGAACAGaaa                                                                                                                                                                                                                    <  1:388824/249‑1 (MQ=255)                   aTACCGCCAGAGCTTCTGCGACATCTTTAATTGCGGGTGCACAACTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACtt                                                                                                                                                                                                     <  1:355610/251‑1 (MQ=255)                       cGCCAGAGCTTCTGCGACATCTTTAATTGCGGGTGCACAACTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTcaca                                                                                                                                                                                                 <  1:101819/251‑1 (MQ=255)                                  cTGCGCCATCTTTAATTGCGGGTGCACAACTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAaaaataaa                                                                                                                                                                                       >  1:366998/1‑250 (MQ=255)                                                   gCGGGTGCACAACTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGtttatttt                                                                                                                                                                     <  1:386361/251‑1 (MQ=255)                                                             aaCTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATACAATTTATAAAGTTTATTTTATTGTGAAc                                                                                                                                                            >  2:234280/1‑250 (MQ=255)                                                             aaCTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACa                                                                                                                                                           <  1:234280/251‑1 (MQ=255)                                                                       aCCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTg                                                                                                                                                 >  1:398688/1‑251 (MQ=255)                                                                                                  gCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAg                                                                                                                      <  2:366998/251‑1 (MQ=255)                                                                                                               tCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAACATAAAATTTATAAAGTTTATTTTATTGAGAACAATGGCGAGTGGCTTAAACTTTTATTTCATTTAATTAGTTTAAAAACatg                                                                                                          >  2:138207/1‑250 (MQ=255)                                                                                                                         cttcctGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGt                                                                                               >  1:245315/1‑251 (MQ=255)                                                                                                                                    aTTCGCAGGTAATGCTCTATGCCTATGCAGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACTTTCTCTTTGCCTGTAA‑TTTAAGACTCCCCTAGATCACCACAGCAATAACAGAAAAGAGTCTGGCGACTTCACACAAATAGAAAATTTTTATAGTTGATGTTATTGTGAACAAATTCGCGGGGTGTAAGATTTTATTTCCATTGTTTAGTTTACAATCATGATGGTATGTGTTTTTcccattt                                                                                    <  2:225472/251‑7 (MQ=255)                                                                                                                                          aGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGtttttt                                                                                 >  2:38505/1‑248 (MQ=255)                                                                                                                                                              aCCGTACGGCAGCGCTGAATCAAACTCTGACTCGCTCATCAAGTTCTCCTGTCCTCGAA‑TTGAAGACGCCACTAGATCAACACACCAAGAACAGAAAAGATGCTAGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGAGAGAGGCTTAAAATTTTATTTAATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATGTTGATGGCTgg                                                          >  2:271605/1‑251 (MQ=255)                                                                                                                                                                cGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATGTTGCTGGATGGTg                                                        >  1:297004/1‑251 (MQ=255)                                                                                                                                                                                  cAAACTCCGACTGGCCCAGCTCGTTCTCTTGTCCTTGAAGTTGA‑GACGCCACTAGATCTCCACATCAAGAACAGAAAAGATGCAGGCGACTGCACAAAAAAATAAAATTTATAAAGTTTATTTTATTTTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATTTTTCTGGATGGTGAGTGTCTTTAACGCTAtt                                      <  2:267381/251‑1 (MQ=255)                                                                                                                                                                                             tGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATGTTGCTGGATgg                                                          >  1:320474/1‑220 (MQ=255)                                                                                                                                                                                             tGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTAGATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATGTTGCTGGATgg                                                          <  2:320474/220‑1 (MQ=255)                                                                                                                                                                                                         tactctttttcctgta‑ttgaaGCCGACACTAGATCACCACAGCAAGACCAGAATAGATGCTGGCGCCTTCACAAAAAACAAAAATCTATAAAGTTTATTTTATTGCGAACAATCGCGACCGGCCTAAAATTTTATTTCGATTAATTAGTTAAAAAACATGATGGTATTTGTATTTTTGGTTTTTTAGATGCTAGATGTTGCTGGATGGTGAGTGTCTTTAACGCTCTTGCGCTGTCAGATGTAACTCTgac               >  2:310214/16‑249 (MQ=255)                                                                                                                                                                                                                      gaa‑ttgaaGACGCCACTAGAGCACCACAGCAAGAACAGAAAATATGCTGGCGACTTCACAAAAAAATAAAATTTATAAATTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATTTTGCTGTATGGTGAGTGTCTTTAACGCTATTGCGCTGTCAGATGTAACTCTGTAAAACAGATCAGGa  <  2:396321/251‑1 (MQ=255)                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                         TAACTATCATCGCTTCAGATACCGCCAGAGCTTCTGCGACATCTTTAATTGCGGGTGCACAACTCAGGTTACCGGGTTTGAGTAACCACTCCACGATGCGGCTTTCATTTTCTGTCATTCCTTCCTGCTTCATTCGCAGGTAAGGCGCTAACCCTATACCGTTCGGAAGCGCTGAATCAAACTCTGACTGGCTCATCACGTTCTCTTGTCCTTGAA‑TTGAAGACGCCACTATATCACCACAGCAAGAACAGAAAAGATGCTGGCGACTTCACAAAAAAATAAAATTTATAAAGTTTATTTTATTGTGAACAATGGCGAGTGGCTTAAAATTTTATTTCATTTAATTAGTTTAAAAACATGATGTTATTTGTTTTTCTGGTTTTTTAGATGATAGATGTTGCTGGATGGTGAGTGTCTTTAACGCTATTGCGCTGTCAGATGTAACTCTGTAAAACAGATCAGGA  >  NC_000913/4312796‑4313259

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑