Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,589,458	A→T	6.9%	M83L (ATG→TTG)	PP_1394 →	acetolactate synthase large subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,589,458	0	A	T	6.9%	164.0 / 3.2	58	M83L (ATG→TTG)	PP_1394	acetolactate synthase large subunit
Reads supporting (aligned to +/- strand):  ref base A (31/23);  new base T (2/2);  total (33/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.63e-01

GCGGGCTCTTCCATTCGCCACATCACCCCGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTGGCGGCGTTTTCCCA  >  NC_002947/1589317‑1589600                                                                                                                                              |                                                                                                                                                gCGGGCTCTTCCATTCGCCACATCACCCCGCGCCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAAGATCACCACTGCCATGGGc                                                                                                                                            >  2:271040/1‑147 (MQ=255)           ccATTCGCCACATCACCCCGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGcc                                                                                                                                >  3:102470/1‑149 (MQ=255)              ttCGCCACATCACCCCGCGTCATGAGCAAGGTGCTGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGAc                                                                                                                             >  2:82279/1‑149 (MQ=255)              ttCGCCACATCACCCCGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGAc                                                                                                                             <  1:49129/149‑1 (MQ=255)                 gCCACATCACCCCGCGTCATGAGCAATGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACt                                                                                                                            <  5:154676/147‑1 (MQ=255)                 gCCACATCACCCCGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGCGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACt                                                                                                                            >  6:154676/1‑147 (MQ=255)                      aTCACCCCGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCTGGGGCCAGGCCTATGCCGACTCGATccc                                                                                                                     >  4:209295/1‑149 (MQ=255)                         aCCCCGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGAt                                                                                                                  <  6:357559/149‑1 (MQ=255)                           cccGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGc                                                                                                                >  6:197571/1‑149 (MQ=255)                                  cATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCTTGGGCCAGGCCTATGCCGACTCGATc                                                                                                                       <  7:10524/135‑1 (MQ=255)                                  cATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCTTGGGCCAGGCCTATGCCGACTCGATc                                                                                                                       >  8:10524/1‑135 (MQ=255)                                       gCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCa                                                                                                    <  3:103747/149‑1 (MQ=255)                                        cAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTc                                                                                                      >  8:215260/1‑146 (MQ=255)                                        cAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCa                                                                                                    <  7:215260/148‑1 (MQ=255)                                             tGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTg                                                                                               >  3:170860/1‑148 (MQ=255)                                                   gTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCTGGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTccc                                                                                        <  3:209295/149‑1 (MQ=255)                                                       aTGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGa                                                                                    <  4:323027/149‑1 (MQ=255)                                                             gACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACt                                                                              >  5:263332/1‑149 (MQ=255)                                                              aCGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGc                                                                                                                                 >  4:178038/1‑97 (MQ=255)                                                              aCGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGc                                                                                                                                 <  3:178038/97‑1 (MQ=255)                                                                    aTGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCTCCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTcc                                                                                                     <  1:272809/119‑1 (MQ=255)                                                                    aTGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTcc                                                                                                     >  2:272809/1‑119 (MQ=255)                                                                       cgcgcACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGAt                                                                                                                        >  3:206425/1‑97 (MQ=255)                                                                       cgcgcACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGAt                                                                                                                        <  4:206425/97‑1 (MQ=255)                                                                          gcACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGt                                                                <  3:246651/149‑1 (MQ=255)                                                                              ccGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGCCCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGc                                                             >  7:46508/1‑148 (MQ=255)                                                                               cgcgGCAAACCCGGTGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCaa                                                           <  8:264895/149‑1 (MQ=255)                                                                                gcgGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGc                                                             >  2:241821/1‑146 (MQ=255)                                                                                gcgGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCaa                                                           <  1:241821/148‑1 (MQ=255)                                                                                gcgGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAg                                                          <  1:131389/149‑1 (MQ=255)                                                                                    cAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGc                                                      <  1:271040/149‑1 (MQ=255)                                                                                     aaaCCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCa                                                     >  2:317341/1‑149 (MQ=255)                                                                                       aCCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCAc                                                    >  3:210893/1‑148 (MQ=255)                                                                                               tATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGccc                                           <  6:263332/149‑1 (MQ=255)                                                                                                    ttCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCccaacc                                       >  2:183711/1‑148 (MQ=255)                                                                                                     gcttcatcaCTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCccaaccaa                                     >  2:80204/4‑149 (MQ=255)                                                                                                               tGGCCCGGGCATGCCCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGACGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTgg                           >  7:107565/1‑149 (MQ=255)                                                                                                                   ccGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGGCTGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTAt                        <  1:80204/149‑1 (MQ=255)                                                                                                                   ccGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGAACGAGCTGCCCAACCAAGCCGCGCTGGTATc                       >  5:264065/1‑149 (MQ=255)                                                                                                                   ccGGGCATGACCAATATCACCACTGCCATGGGCCAAGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATc                       >  1:54954/1‑149 (MQ=255)                                                                                                                    cGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCg                      >  3:3857/1‑149 (MQ=255)                                                                                                                       gCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCgggg                   >  3:231779/1‑149 (MQ=255)                                                                                                                          tGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTg                <  4:102470/149‑1 (MQ=255)                                                                                                                            aCCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGc                                                                                              <  4:225685/70‑1 (MQ=255)                                                                                                                            aCCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGc                                                                                              >  3:225685/1‑70 (MQ=255)                                                                                                                            aCCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTggc              >  5:142540/1‑149 (MQ=255)                                                                                                                            aCCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTggc              >  4:222946/1‑149 (MQ=255)                                                                                                                             ccAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGa                                                  <  8:214873/112‑1 (MQ=255)                                                                                                                             ccAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGa                                                  >  7:214873/1‑112 (MQ=255)                                                                                                                             ccAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTggcg             >  8:294573/1‑149 (MQ=255)                                                                                                                              cAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTg                            >  4:74673/1‑133 (MQ=255)                                                                                                                              cAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTg                            <  3:74673/133‑1 (MQ=255)                                                                                                                                     accacTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTGGCGGCGtttt      <  6:142540/148‑1 (MQ=255)                                                                                                                                     accacTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTGGCGGCGtttt      <  4:3857/148‑1 (MQ=255)                                                                                                                                     accacTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTGGCGGCGTTTTc     >  7:260524/1‑149 (MQ=255)                                                                                                                                      ccacTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTGGCGGCGTTTTcc    <  4:170860/149‑1 (MQ=255)                                                                                                                                       cacTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTGGCGGCGTTTTcc    >  3:93384/1‑148 (MQ=255)                                                                                                                                        acTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGAAGGCGGCGTTTTCCca  >  2:336082/1‑149 (MQ=255)                                                                                                                                              |                                                                                                                                                GCGGGCTCTTCCATTCGCCACATCACCCCGCGTCATGAGCAAGGTGCCGGGTTCATGGCTGACGGCTATGCGCGCACCCGCGGCAAACCCGGGGTATGCTTCATCATCACTGGCCCGGGCATGACCAATATCACCACTGCCATGGGCCAGGCCTATGCCGACTCGATCCCGATGCTGGTGATTTCCAGCGTGCAGTCCCGTGACCAACTGGGCGG‑TGGCCGTGGCAAGTTGCACGAGCTGCCCAACCAAGCCGCGCTGGTATCGGGGGTGGCGGCGTTTTCCCA  >  NC_002947/1589317‑1589600

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑