Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	2,820,787	C→A	11.2%	Q23K (CAG→AAG)	srlB →	glucitol/sorbitol‑specific enzyme IIA component of PTS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,820,787	0	C	A	11.2%	92.5 / 2.1	32	Q23K (CAG→AAG)	srlB	glucitol/sorbitol‑specific enzyme IIA component of PTS
Reads supporting (aligned to +/- strand):  ref base C (13/15);  new base A (2/2);  total (15/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.46e-01

CACTGTTTGCCATCAACGCGCAGGCGGCCTGCGACTTCATCCCGGTCGGTTTGTCGCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCATGTCACCCTGCGCTTCGATGGTTTAAACGAAGCGGAATTTCCGGGCACTGTCCATGTGGCAGGCCCTGTC  >  CP009273/2820532‑2821038                                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                            cACTGTTTGCCATCAACGCGCAGGCGGCCTGCGACTTCATCCCGGTCGGTTTGTCGCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑CCCACCATCACCCGTATCGGCGCGCGTCCCATTACCGCCCCCAGTACCCAGATGCTCATCCCCTTTc                                                                                                                                                                                                                                           >  1:605399/1‑274 (MQ=255)         gCCATCAACGCGCAGGCGGCCTGCGACTTCATCCCGGTCGGTTTGTCGCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGgcg                                                                                                                                                                                                                                  <  1:218720/275‑1 (MQ=255)                        gcggcCTGCGACTTCATCCCGGTCGGTTTGTCGCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAAGCTGAAACATGCCCGTTATTTATAAG‑ACCACCATCACCCATATCGGCGCGAGTGCCATTTACGCCCTCAGTGACCAGATGCCCATCACCTTTCTTGAAGGCGCGCCTGCGGACCTCg                                                                                                                                                                                                                   >  1:223492/1‑275 (MQ=255)                                 gtctgcATCCCGGTCGGGGTGTCGCTGGCGGCAGCCCGTTAGGACACGGGTCGCGTCGTGGGCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTAATGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTa                                                                                                                                                                                                            <  2:223490/268‑1 (MQ=255)                                                                 aGCCCGTGAGGACACGGTTCGCGTCGTTGTCCCTTCTGTACTGTTGAGCCGCTTGTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAAGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGt                                                                                                                                                                          <  1:588668/275‑1 (MQ=255)                                                                                                                               gcgcgcCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGCCCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTgg                                                                                                            >  1:417582/1‑275 (MQ=255)                                                                                                                                                 tCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTg                                                                                                                                                                                >  1:137119/1‑189 (MQ=255)                                                                                                                                                     cTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAg                                                                                                                                                                            <  2:137118/189‑1 (MQ=255)                                                                                                                                                        gTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGc                                                                                                                                                                                            >  2:657150/1‑170 (MQ=255)                                                                                                                                                            gTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACg                                                                                                                                                                                        <  1:657164/170‑1 (MQ=255)                                                                                                                                                                   gTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACAAGATGCTCATCACCtt                                                                                                                                                                                                                                             >  2:363727/1‑110 (MQ=255)                                                                                                                                                                   gTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACAAGATGCTCATCACCtt                                                                                                                                                                                                                                             >  2:268505/1‑110 (MQ=255)                                                                                                                                                                       tatctatcAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACAAGATGCTCATCACCTTTCGt                                                                                                                                                                                                                                         <  1:363734/110‑1 (MQ=255)                                                                                                                                                                       tatctatcAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACAAGATGCTCATCACCTTTCGt                                                                                                                                                                                                                                         <  1:268509/110‑1 (MQ=255)                                                                                                                                                                              cAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGc                                                                                                                                                                                            >  1:418335/1‑148 (MQ=255)                                                                                                                                                                                atggagGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTAACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCATGTCACCCTgcgc                                                           <  1:95796/272‑1 (MQ=255)                                                                                                                                                                                  agagGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACg                                                                                                                                                                                        <  2:418328/148‑1 (MQ=255)                                                                                                                                                                                    agGATGAAAAATGACATTTATTTACAGGAACCACC‑TCCCCATTACCGGAGCGAGTGCCCTTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGTCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCATGTCACCCTGCGCTTCg                                                       <  2:417575/275‑1 (MQ=255)                                                                                                                                                                                                gACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCAACGGCGAGTTGGAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTTGCAGCGTGGCGGAAGACAACCCTCGCGAAATGGGTCAGGGCTCCCGGCTCTGCGCTggggtctctg                                           >  2:294948/1‑267 (MQ=255)                                                                                                                                                                                                     ttatttatCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTTACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCGTGTCACCCTGCGCTCCGCTGGTTTAAACAAAGCg                                      >  1:375398/1‑275 (MQ=255)                                                                                                                                                                                                     ttatttatCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCg                                                                                                       >  1:190810/1‑210 (MQ=255)                                                                                                                                                                                                         ttatCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGc                                                                                                   <  2:190808/210‑1 (MQ=255)                                                                                                                                                                                                                   caccaTCACCCGTATCGGCGCGAGTACCATTGACGCACTCAGTGACCAGACGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCGTCATTCACTGCCACCGCGAGTTGAAAGGTGCGATCCATCCCGGTTTGCACTTTTCACTCGGGCAGCACAGCTCTCCGGCGACCGCTGTGTGCAACGCAGCGGATGCCAACCTCCGCGAGCTGGGTCATGTCACCCGGGGGTTCGGTGGGTTAAACGAAGGGGACTGCCCGGGCa                         >  2:699804/1‑275 (MQ=255)                                                                                                                                                                                                                               tATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGgc                                                                                                                                        >  2:269338/1‑152 (MQ=255)                                                                                                                                                                                                                                  gggCGCGAGTTCCATTGACGCCCTCATTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCATGTCACCCTGCGCTTCGATGGTTTAAACGAAGCGGAATTTCCGGGCACTGTCCATGTGGCa           <  1:369756/273‑1 (MQ=255)                                                                                                                                                                                                                                   ggCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGgcagca                                                                                                                                    <  1:269342/152‑1 (MQ=255)                                                                                                                                                                                                                                     cgcgAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAag                                                                                                                                                                                                                >  2:716684/1‑74 (MQ=255)                                                                                                                                                                                                                                     cgcgAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCATGTCACCCTGCGCTTCGATGGTTTAAACGAAGCGGAATTTCCGGGCACTGTCCATGTGGCAGGcc       <  1:294953/275‑1 (MQ=255)                                                                                                                                                                                                                                         aGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTa                                                                                                                                                                                                            <  1:716698/74‑1 (MQ=255)                                                                                                                                                                                                                                           tGCCATTGGCGCCCTCATTGACCAGATGCTAATCACCTGGCGTGACGGCGCGCCTGCGGACATCAAAGAGTATTGCTTAATTCATTGCCACGGGGAGTTGAAAGGTGCACTCCATCCCGGTATACAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCATGTCACCCTGCGCTTCGATGGTTTAAACGAAGCGGAATTTCCGGGCACTGTCCATGTGGCAGGCCCTGTc  <  1:688710/274‑1 (MQ=255)                                                                                                                                                                                                                                                           aGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGt                                                                                                                                                                                  >  1:35468/1‑82 (MQ=255)                                                                                                                                                                                                                                                               aCCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGaa                                                                                                                                                                              <  2:35467/82‑1 (MQ=255)                                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                            CACTGTTTGCCATCAACGCGCAGGCGGCCTGCGACTTCATCCCGGTCGGTTTGTCGCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAG‑ACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCGAAGAGTATTGCTTCATTCATTGCCACGGCGAGTTGAAAGGTGCACTCCATCCCGGTTTGCAATTTTCACTCGGGCAGCATCGCTATCCGGTGACCGCTGTTGGCAGCGTGGCGGAAGACAACCTTCGCGAACTGGGTCATGTCACCCTGCGCTTCGATGGTTTAAACGAAGCGGAATTTCCGGGCACTGTCCATGTGGCAGGCCCTGTC  >  CP009273/2820532‑2821038

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑