Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,736,276	C→T	intergenic (+119/+77)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,736,276	0	C	T	100.0%	175.4 / NA	55	intergenic (+119/+77)	xylR/bax	xylose divergent operon transcriptional activator/putative glucosaminidase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (25/30);  total (25/30)

CGAGGTCATGTTGTAGCG‑ATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGA  >  NC_000913/3736142‑3736399                                                                                                                                        |                                                                                                                            cGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCg                                                                                                                          >  2:418284/1‑139 (MQ=255)    ggTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAg                                                                                                                       >  2:758799/1‑139 (MQ=255)         tgttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTGGTAGCTCaa                                                                                                                  <  1:1012548/139‑1 (MQ=39)         tgttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  <  1:1133641/139‑1 (MQ=39)         tgttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  <  1:418284/139‑1 (MQ=255)                   aatgatgAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  >  1:802821/2‑129 (MQ=255)                   aatgatgAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  <  2:802821/128‑1 (MQ=255)                     tgatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTgaga                                                                                                        <  2:170010/137‑1 (MQ=255)                     tgatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTgaga                                                                                                        >  1:170010/1‑137 (MQ=255)                     tgatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACa                                                                                                      >  1:376908/1‑139 (MQ=255)                                 tCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGcc                                                                                          >  1:494749/1‑139 (MQ=255)                                    gCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTa                                                                                       <  2:769347/139‑1 (MQ=255)                                      gTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATc                                                                                     <  2:376908/139‑1 (MQ=255)                                       tCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATcc                                                                                    <  1:1410900/139‑1 (MQ=255)                                        cacaTCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATc                                                                                     >  2:596206/1‑137 (MQ=255)                                        cacaTCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATc                                                                                     <  1:596206/137‑1 (MQ=255)                                                   aCGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                     <  2:341531/110‑1 (MQ=255)                                                   aCGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                     >  1:341531/1‑110 (MQ=255)                                                     gCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  <  2:1328990/95‑1 (MQ=255)                                                     gCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  >  1:1328990/1‑95 (MQ=255)                                                       tGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGAt                                                                    <  2:494749/139‑1 (MQ=255)                                                                 tCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTCACAAGTCGGATAAGGCTCAAg                                                          >  2:375792/1‑139 (MQ=255)                                                                        cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGc                                                   >  1:1368888/1‑139 (MQ=255)                                                                           cgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAAt                                                >  2:1075950/1‑139 (MQ=255)                                                                                            aCCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACa                                                                                                      <  1:1161888/68‑1 (MQ=255)                                                                                            aCCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACa                                                                                                      >  2:1161888/1‑68 (MQ=255)                                                                                                aCCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAAt                                                     >  2:372326/1‑113 (MQ=255)                                                                                                aCCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAAt                                                     <  1:372326/113‑1 (MQ=255)                                                                                                 cccGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGaaa                                                      <  1:1485937/111‑1 (MQ=255)                                                                                                 cccGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGaaa                                                      >  2:1485937/1‑111 (MQ=255)                                                                                                 cccGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAAcc                          <  1:758799/139‑1 (MQ=255)                                                                                                  ccGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCg                         >  2:1291294/1‑139 (MQ=255)                                                                                                       aGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGt                    <  2:1076310/139‑1 (MQ=255)                                                                                                       aGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGt                    <  2:1368888/139‑1 (MQ=255)                                                                                                       aGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGt                    <  1:1075950/139‑1 (MQ=255)                                                                                                       aGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTCACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGt                    <  1:375792/139‑1 (MQ=255)                                                                                                        ggCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTgaga                                                                                                        >  1:1048756/1‑54 (MQ=255)                                                                                                        ggCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTgaga                                                                                                        <  2:1048756/54‑1 (MQ=255)                                                                                                           aTGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  >  2:61868/1‑41 (MQ=255)                                                                                                           aTGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                  <  1:61868/41‑1 (MQ=255)                                                                                                                    cGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATgcg                                      >  1:1450788/1‑108 (MQ=255)                                                                                                                    cGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATgcg                                      <  2:1450788/108‑1 (MQ=255)                                                                                                                       aCCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCt                                                              >  2:89870/1‑81 (MQ=255)                                                                                                                       aCCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCt                                                              <  1:89870/81‑1 (MQ=255)                                                                                                                       aCCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATgcgc                                     >  1:592200/1‑106 (MQ=255)                                                                                                                       aCCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATgcgc                                     <  2:592200/106‑1 (MQ=255)                                                                                                                       aCCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGc    >  2:370757/1‑139 (MQ=255)                                                                                                                        ccAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTgg                     <  1:376381/121‑1 (MQ=255)                                                                                                                        ccAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTgg                     >  2:376381/1‑121 (MQ=255)                                                                                                                         caacaaCGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTTGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAAcc                          <  2:1180355/115‑1 (MQ=255)                                                                                                                         caacaaCGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTTGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAAcc                          >  1:1180355/1‑115 (MQ=255)                                                                                                                         caacaaCGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGa  <  1:370757/139‑1 (MQ=255)                                                                                                                               cGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTa                  <  1:270413/117‑1 (MQ=255)                                                                                                                               cGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTa                  >  2:270413/1‑117 (MQ=255)                                                                                                                                     aGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAAt                                                     <  2:379731/76‑1 (MQ=255)                                                                                                                                        |                                                                                                                            CGAGGTCATGTTGTAGCG‑ATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGA  >  NC_000913/3736142‑3736399

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑