Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,728,118	(C)8→9	coding (1254/1455 nt)	xylB ←	xylulokinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,728,110	1	.	C	88.2%	45.0 / 0.6	17	coding (1262/1455 nt)	xylB	xylulokinase
Reads supporting (aligned to +/- strand):  ref base . (1/1);  new base C (5/10);  total (6/11)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01

CTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑CCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACG  >  NC_000913/3728000‑3728235                                                                                                                 |                                                                                                                               cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAgctgct                                                                                                    <  2:1034873/139‑1 (MQ=255)      aGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑ccccccc‑ccgtac                                                                                                                  <  2:725534/119‑6 (MQ=255)      aGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑ccccccc‑ccgtac                                                                                                                  >  1:725534/1‑114 (MQ=255)        aTGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCt                                                                                             <  2:169689/139‑1 (MQ=255)             aCTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAAC‑CCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGatat                                                                                        <  2:423676/139‑1 (MQ=255)                   cTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCa                                                                                  >  1:166083/1‑139 (MQ=255)                          tAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATACGCAGCGATCTGCGCAAGCCTTGCTGCGCCCAGTGCTGGCTACAC‑AT‑CCCCCCCACGTACCGTAATCGAGCCGCCAACCGCTGATATACTCCAACctctt                                                                           >  2:480638/1‑138 (MQ=255)                           aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTCCGGTAATCGTGCTGCTGACCGCTGCGAGCCGCCGACATCTgc                                                                          >  1:276765/1‑138 (MQ=255)                           aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CATACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa                                                                          <  2:760085/139‑1 (MQ=255)                            gTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGAc                                                                         >  2:893675/1‑139 (MQ=255)                             ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg                                                                        >  2:859170/1‑139 (MQ=255)                                    aacaaTTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTTCAGCAATTTTACTGGCGACCGCTGCTACCCCCCACCACCTGACAACAGTAc                                                                 >  2:943162/1‑139 (MQ=255)                                          tCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTa                                                           <  1:135981/139‑1 (MQ=255)                                                 gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc                                                    <  1:943162/139‑1 (MQ=255)                                                           tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt                                          <  1:859170/139‑1 (MQ=255)                                                           tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt                                          <  2:61917/139‑1 (MQ=255)                                                                 cgccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGt                                    >  1:674907/1‑139 (MQ=255)                                                                                  gCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTaa                   <  1:893675/139‑1 (MQ=255)                                                                                               cAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATg      <  2:674907/139‑1 (MQ=255)                                                                                                   gCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACg  <  2:645958/139‑1 (MQ=255)                                                                                                                 |                                                                                                                               CTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑CCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACG  >  NC_000913/3728000‑3728235

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑