Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 2,013,755 G→C R63P (CGC→CCC)  fliM → flagellar motor switch protein FliM

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092732,013,7550GC92.9% 38.7 / ‑2.7 14R63P (CGC→CCC) fliMflagellar motor switch protein FliM
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base C (6/7);  total (6/8)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.11e-01

TCGTCCGTACGATCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCGCCATTTTCGTATGGGGCTGTTCAACCTGCTGCGTCGTAGCCCGGATATAACCGTCGGGGCCATCCGCAT  >  NZ_CP009273/2013672‑2013824
                                                                                   |                                                                     
tCGTCCGTACGATCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCAttt                                                                 >  1:149341/1‑90 (MQ=255)
 cGTCCGTACGATCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCAtttt                                                                <  2:320523/90‑1 (MQ=255)
 cGTCCGTACGATCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCAtttc                                                                <  1:563060/90‑2 (MQ=255)
      gTACGATCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTAt                                                           >  1:530758/1‑90 (MQ=255)
          gATCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTCTGCCCCCCATTTTCGTATgggg                                                       <  2:356635/90‑1 (MQ=255)
           aTCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGc                                                      >  1:26590/1‑90 (MQ=255)
                     ccAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGCTGTTCAACct                                            >  1:109508/1‑90 (MQ=255)
                      cAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGCTGTTCAACctg                                           >  2:337050/1‑90 (MQ=255)
                        acgacgGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGCTGTTCAACctgct                                         >  2:483263/1‑90 (MQ=255)
                               gTTGTGCGCGACCTTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCGCCATTTTCGTATGGGGCTGTTCAACCTGCTGcgtcgt                                  <  2:522510/90‑1 (MQ=255)
                               gTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGCTGTTCAACCTGCTGcgtcgt                                  <  2:398780/90‑1 (MQ=255)
                                   tgCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGCTGTTCAACCTGCTGCGTCGTAGcc                              <  1:303559/90‑1 (MQ=255)
                                        gAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGCTGTTCAACCTGCTGCGTCGTAGCCCGGat                         <  1:540459/90‑1 (MQ=255)
                                                               cATTAATGAGCGCTTTGCCCCCCATTTTCGTATGGGGCTGTTCAACCTGCTGCGTCGTAGCCCGGATATAACCGTCGGGGCCATCCGCAt  <  1:287437/90‑1 (MQ=255)
                                                                                   |                                                                     
TCGTCCGTACGATCCGAATACCCAACGACGGGTTGTGCGCGAACGTTTGCAGGCGCTGGAAATCATTAATGAGCGCTTTGCCCGCCATTTTCGTATGGGGCTGTTCAACCTGCTGCGTCGTAGCCCGGATATAACCGTCGGGGCCATCCGCAT  >  NZ_CP009273/2013672‑2013824

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑