Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,664,928	T→C	S325P (TCG→CCG)	ynfM →	MFS transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,664,928	0	T	C	96.3%	184.4 / ‑1.3	54	S325P (TCG→CCG)	ynfM	MFS transporter
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (28/24);  total (29/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GACCGGTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTATCTGTTCAGTTAC  >  NZ_CP009273/1664810‑1665065                                                                                                                       |                                                                                                                                          gACCGGTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGc                                                                                                                        <  2:35884/138‑1 (MQ=255) gACCGGTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGc                                                                                                                        <  2:774332/138‑1 (MQ=255)  aCCGGTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCg                                                                                                                      <  1:279050/139‑1 (MQ=255)     ggTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGaa                                                                                                                   <  2:26383/139‑1 (MQ=255)          aTGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTa                                                                                                              <  1:782437/139‑1 (MQ=255)                 tCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACtcttct                                                                                                       >  1:180529/1‑139 (MQ=255)                 tCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACtcttct                                                                                                       >  2:255417/1‑139 (MQ=255)                 tCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACtcttct                                                                                                       >  2:1124592/1‑139 (MQ=255)                 tCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACtcttct                                                                                                       >  1:986102/1‑139 (MQ=255)                   aCCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACtcttct                                                                                                       >  1:703341/1‑137 (MQ=255)                        aaGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAgg                                                                                                >  2:632723/1‑139 (MQ=255)                                      accaccCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGccc                                                                                  <  1:255417/139‑1 (MQ=255)                                          cccGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGGTATGCTGTTTGGTTTACTGACGACCTTATTCAGCCCGCTGTGTCTGATCTTTGTCGGAATGTTACTTTTCTCAGAAGGATTCTTCGCAGCCCACt                                                                               >  2:141760/1‑138 (MQ=255)                                           ccGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACt                                                                               >  1:1115867/1‑137 (MQ=255)                                                 tGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGcc                                                                       <  2:293845/139‑1 (MQ=255)                                                   ggCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCcag                                                                     >  2:497299/1‑139 (MQ=255)                                                         gTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCt                                                                <  1:740826/138‑1 (MQ=255)                                                         gTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTg                                                               >  1:984901/1‑139 (MQ=255)                                                         gTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGAGTCTTCGCAGCCCACTCAGTAGCCAGCAGCTg                                                               >  2:67193/1‑139 (MQ=255)                                                                   gttgttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGcccc                                                     >  1:292189/1‑139 (MQ=255)                                                                    ttgttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTcagca                                                                                                  >  1:647802/1‑93 (MQ=255)                                                                    ttgttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTcagca                                                                                                  <  2:647802/93‑1 (MQ=255)                                                                    ttgttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGccccc                                                    >  2:194456/1‑139 (MQ=255)                                                                    ttgttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGccccc                                                    >  1:285575/1‑139 (MQ=255)                                                                    ttgttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGccccc                                                    >  2:423494/1‑139 (MQ=255)                                                                    ttgttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGccccc                                                    >  1:443858/1‑139 (MQ=255)                                                                      gttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCt                                                                >  2:755021/1‑125 (MQ=255)                                                                      gttTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTCGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCt                                                                <  1:755021/125‑1 (MQ=255)                                                                         ttCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTTGCAGCCCACTCAGTAGcc                                                                       >  2:405421/1‑115 (MQ=255)                                                                         ttCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGcc                                                                       <  1:405421/115‑1 (MQ=255)                                                                                   gTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTa                                     <  2:438485/139‑1 (MQ=255)                                                                                         cTGTTTGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAaggc                                <  2:1059065/138‑1 (MQ=255)                                                                                            tttGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCa                                                                                      >  1:140568/1‑81 (MQ=255)                                                                                            tttGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCa                                                                                      <  2:140568/81‑1 (MQ=255)                                                                                            tttGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAaggccagg                            >  1:35085/1‑139 (MQ=255)                                                                                            tttGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAaggccagg                            <  2:443858/139‑1 (MQ=255)                                                                                            tttGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAaggcca                              <  1:497299/137‑1 (MQ=255)                                                                                             ttGGTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAaggccaggc                           >  1:103379/1‑139 (MQ=255)                                                                                                gTTTACTGATGACCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGcctc                        <  2:180529/139‑1 (MQ=255)                                                                                                        atgaCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTg                 >  1:1185062/1‑138 (MQ=255)                                                                                                        atgaCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTg                 <  2:703341/138‑1 (MQ=255)                                                                                                          gaCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAaggccagg                            >  1:1083142/1‑125 (MQ=255)                                                                                                          gaCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAaggccagg                            <  2:1083142/125‑1 (MQ=255)                                                                                                          gaCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTAt              >  2:1058144/1‑139 (MQ=255)                                                                                                           aCCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTAt              <  2:139124/138‑1 (MQ=255)                                                                                                           aCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTcagca                                                                                                  <  1:913831/54‑1 (MQ=255)                                                                                                           aCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTcagca                                                                                                  >  2:913831/1‑54 (MQ=255)                                                                                                           aCCTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTAt              <  2:1115867/138‑1 (MQ=255)                                                                                                             cTTATTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTATCTg           <  1:231637/139‑1 (MQ=255)                                                                                                                aTTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCCGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCACGCCTCCTCGCTGTATCTGTTc        >  2:229962/1‑139 (MQ=255)                                                                                                                aTTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGcc                                                                       <  2:1224978/76‑1 (MQ=255)                                                                                                                aTTCAGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGcc                                                                       >  1:1224978/1‑76 (MQ=255)                                                                                                                    aGCCCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTATCTGTTCAGt     <  1:194456/138‑1 (MQ=255)                                                                                                                      cTCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTATCTGTTCAGTTAc  >  2:1176126/1‑139 (MQ=255)                                                                                                                       |                                                                                                                                          GACCGGTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGGATTCTTCGCAGCCCACTCAGTAGCCAGCAGCTGGATCGGCCCCCGCGCAAAACGCGCTAAAGGCCAGGCCTCCTCGCTGTATCTGTTCAGTTAC  >  NZ_CP009273/1664810‑1665065

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑