Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,493,774	A→G	L435L (TTA→TTG)	trg →	methyl‑accepting chemotaxis protein III, ribose and galactose sensor receptor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,493,774	0	A	G	95.7%	155.2 / ‑1.6	47	L435L (TTA→TTG)	trg	methyl‑accepting chemotaxis protein III, ribose and galactose sensor receptor
Reads supporting (aligned to +/- strand):  ref base A (1/1);  new base G (18/27);  total (19/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.95e-01

ATTTGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTAATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATCATGCAGG  >  NC_000913/1493678‑1493865                                                                                                 |                                                                                            aTTTGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGAtt                                                                                          >  1:658323/1‑100 (MQ=255)  tttGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTg                                                                                         >  1:1039013/1‑100 (MQ=255)  tttGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTg                                                                                         <  1:273394/100‑1 (MQ=255)  tttGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTg                                                                                         <  2:827138/100‑1 (MQ=255)  tttGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTg                                                                                         <  2:1213577/100‑1 (MQ=255)    tGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTAATTGAc                                                                                       <  1:40783/100‑1 (MQ=255)          tGTCGCGAGCGAAGTACGGGCACTCGAAAGGCGCAGAGCTCAGTCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTgggt                                                                                 <  2:1339399/100‑2 (MQ=255)            tCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTc                                                                               <  1:1482873/100‑1 (MQ=255)              gCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCgg                                                                             >  2:309603/1‑100 (MQ=255)              gCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCgg                                                                             >  2:1143673/1‑100 (MQ=255)              gCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCgg                                                                             >  1:215588/1‑100 (MQ=255)                     aaGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGt                                                                      <  1:807296/100‑1 (MQ=255)                           ggACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAAc                                                                <  1:331132/100‑1 (MQ=255)                              cacTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGc                                                             >  2:814821/1‑100 (MQ=255)                                cTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCg                                                           <  1:281440/100‑1 (MQ=255)                                 tCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCgg                                                          <  2:1016707/100‑1 (MQ=255)                                  cGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACg                                                               >  2:3037/1‑94 (MQ=255)                                   gCACGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGCATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCAggg                                                         >  2:1105466/1‑99 (MQ=255)                                         cGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCa                                                  >  2:1522225/1‑100 (MQ=255)                                           cAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATg                                                >  2:895364/1‑100 (MQ=255)                                           cAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATg                                                >  1:429342/1‑100 (MQ=255)                                             gcgcTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAg                                              <  2:1414776/100‑1 (MQ=255)                                               gcTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCa                                            >  1:981367/1‑100 (MQ=255)                                               gcTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCa                                            <  1:940295/100‑1 (MQ=255)                                                          gAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGAt                                 <  2:874345/100‑1 (MQ=255)                                                          gAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGAt                                 <  2:1058105/100‑1 (MQ=255)                                                            aaGAGATTGAAGGCTTGATCAGTGAAGCAGTCAGGTTGATTGAACTGGGGTCGGATGAGGTGGCAACTGCCGGGAAAACCATGAGCACTATTGTTGATg                                <  2:761312/99‑1 (MQ=255)                                                               agaTTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGt                            >  1:523430/1‑100 (MQ=255)                                                                gaTTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCATCGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTc                           <  2:1001459/100‑1 (MQ=255)                                                                 aTTGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTcg                          <  2:319309/100‑1 (MQ=255)                                                                  ttGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTcgc                         <  1:814826/100‑1 (MQ=255)                                                                   tGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTcgcg                        <  1:1319869/100‑1 (MQ=255)                                                                   tGAAGGCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTcgcg                        <  2:1297517/100‑1 (MQ=255)                                                                   tGAAGGCTTGATCAGTGAATCAGGCAGGTTGATGGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTcgcg                        <  2:899260/100‑1 (MQ=255)                                                                        gCTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAgtgt                   >  2:446381/1‑100 (MQ=255)                                                                         cTTGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGGCCTATTGTTGATGCCGTCGCGAgtgca                  >  2:1287550/1‑98 (MQ=255)                                                                          ttGATCAGTGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTc                  <  2:216124/99‑1 (MQ=255)                                                                                aGTGAATCAGTCAGGTTAATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACata           >  2:1396609/1‑100 (MQ=255)                                                                                  tGAATCAGTCAGGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATc         <  2:1171951/100‑1 (MQ=255)                                                                                   gAATCAGTCAGGTTGATTGAACTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGCTGCCGTCGCGAGTGTCAAACATATCa        >  2:459796/1‑100 (MQ=255)                                                                                      tcagtcagGTAGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTCTTCATGCCGTCGCGAGTGTCACACATATCATGc     <  2:1041637/100‑1 (MQ=255)                                                                                       cagtcagGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATCATGCa    >  2:1370808/1‑100 (MQ=255)                                                                                       cagtcagGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATCATGCa    <  2:826366/100‑1 (MQ=255)                                                                                        agtcagGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATCATGCAg   <  2:658321/100‑1 (MQ=255)                                                                                         gtcagGTTGATTGACCTGGGGTCGGCAGAGGTGGCAACGGCAGGGAAAACCATGAGCAGTATTGTTGATGCCGACGCGAGTGTCACACATATCCTGCAgg  >  2:449697/1‑100 (MQ=255)                                                                                         gtcagGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATCATGCAgg  <  2:19421/100‑1 (MQ=255)                                                                                         gtcagGTTGATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATCATGCAgg  <  1:892724/100‑1 (MQ=255)                                                                                                 |                                                                                            ATTTGCCGTTGTCGCCAGCGAAGTACGGACACTCGCAAGTCGCAGCGCTCAGGCGGCGAAAGAGATTGAAGGCTTGATCAGTGAATCAGTCAGGTTAATTGACCTGGGGTCGGATGAGGTGGCAACGGCCGGGAAAACCATGAGCACTATTGTTGATGCCGTCGCGAGTGTCACACATATCATGCAGG  >  NC_000913/1493678‑1493865

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑