Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,859,821 G→A 12.2% G20S (GGC→AGC)  PP_5535 → membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,859,8210GA12.2% 104.5 / 3.3 42G20S (GGC→AGC) PP_5535membrane protein
Reads supporting (aligned to +/- strand):  ref base G (19/17);  new base A (3/2);  total (22/20)
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

CCCCTCGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTGAGCTTCGTCGGTGCCCTTCACTGGGGGTTCGCCATGACGTTGCAGGA  >  NC_002947/2859680‑2859969
                                                                                                                                              |                                                                                                                                                    
ccccTCGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCctgct                                                                                                                                               >  3:272263/1‑149 (MQ=255)
ccccTCGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCAGCTTCACTGTCCTGGGTTACGGAGGCctgct                                                                                                                                               >  4:346494/1‑149 (MQ=255)
 cccTCGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCctgctg                                                                                                                                              <  4:272263/149‑1 (MQ=255)
  ccTCGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCtgctgc                                                                                                                                             <  7:269067/149‑1 (MQ=255)
    tCGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACATGCCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGcc                                                                                                                                            >  1:263928/1‑149 (MQ=255)
     cGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGt                                                                                                                                          <  7:268531/149‑1 (MQ=255)
      gACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCctgct                                                                                                                                               <  5:251426/143‑1 (MQ=255)
      gACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGt                                                                                                                                          <  5:359144/148‑1 (MQ=255)
         gcgACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCtgctgc                                                                                                                                             <  8:106618/142‑1 (MQ=255)
         gcgACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCtgctgc                                                                                                                                             >  7:106618/1‑142 (MQ=255)
             cacGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCAGCAGGCCGCCGtaacccag                                                                                                                                   >  6:80364/1‑141 (MQ=255)
                   ttCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCAGCAGGCCGCCGtaa                                                                                                                                        <  5:5861/137‑3 (MQ=255)
                   ttCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCAGCAGGCCGCCGtaa                                                                                                                                        >  6:5861/1‑135 (MQ=255)
                       tGAACCTCATTGGACGACACAATTGACAT‑CGGTTCTTGATCCGTTGCGAAGGGGCGCCCAGATGAGTTCGGTTGCTACTGCTTTATCTGCAAGCCGCTTCACTGTCCTGGGTTACGGCAGCAGGCCGCCGtatc                                                                                                                                       <  8:39563/134‑4 (MQ=255)
                       tGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACgctgc                                                                                                                        >  2:265508/1‑149 (MQ=255)
                       tGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTAGCTACTGCTTTATCTCCAAGCCCCTTCACTGTCCTGGGTTACGGCAGCAGGCCGCCGtaac                                                                                                                                       >  7:39563/1‑131 (MQ=255)
                         aaCCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACgctgc                                                                                                                        <  1:171316/147‑1 (MQ=255)
                           ccTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTGTATTGGTTTGACGCTGCTCag                                                                                                                    >  2:176943/1‑148 (MQ=255)
                            cTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATc                                                                                                                   >  5:52645/1‑149 (MQ=255)
                                      gacACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACgctg                                                                                                                         <  2:353896/133‑1 (MQ=255)
                                      gacACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACgctg                                                                                                                         >  1:353896/1‑133 (MQ=255)
                                      gacACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTggg                                                                                                         <  3:337703/149‑1 (MQ=255)
                                                  aT‑CCGATCATGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGa                                                                                              <  2:263928/148‑1 (MQ=255)
                                                             gAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGCTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAg                                                                                             <  6:104915/139‑1 (MQ=255)
                                                                ccGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTAcggcg                                                                                                                                                      <  6:170391/79‑1 (MQ=255)
                                                                ccGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTAcggcg                                                                                                                                                      >  5:170391/1‑79 (MQ=255)
                                                                               gcCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGtt                                                                                                                                 <  4:19171/85‑1 (MQ=255)
                                                                               gcCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGtt                                                                                                                                 >  3:19171/1‑85 (MQ=255)
                                                                                               ttGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTg                                                 <  6:52645/149‑1 (MQ=255)
                                                                                                 gCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTGAg                                               >  2:288626/1‑149 (MQ=255)
                                                                                                       gCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGata                                                    <  8:110797/138‑1 (MQ=255)
                                                                                                       gCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGata                                                    >  7:110797/1‑138 (MQ=255)
                                                                                                        cTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTGAGCTtcgtc                                        >  5:310047/1‑149 (MQ=255)
                                                                                                          ttATCTCCAAGCGGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGTAGCTGCTGATGCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTAGGCTATGGCGCGCTGATATTGAGCGTCGTCgg                                      >  4:18159/1‑149 (MQ=255)
                                                                                                           tATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTGAGCTTCGTCGGt                                     >  3:177377/1‑149 (MQ=255)
                                                                                                            aTCACCAACCCGCTACACTGACCTCGGTTACGGCGACCTGATCAAGTTTATAGGATTGACGCTGCTAATCCATTTTTGGGCTGAATATCGACCCTTATTCTCGATAATCCTCGTCCGCTAACGCGCCCTGATATTCAGCTTCGTCGCTg                                    >  2:315820/1‑149 (MQ=255)
                                                                                                                 cAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGata                                                    >  1:13845/1‑128 (MQ=255)
                                                                                                                 cAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGata                                                    <  2:13845/128‑1 (MQ=255)
                                                                                                                        cTTCACTGTCCTGGGGTAGGGCCTCCTGCTGGCGTTTATTGGTTTGACGCTGCTGATCCTTTTTTTGGCTGAATATCGAGCGTTTTTCTCGTTGATTGTTGTGGGCTATGGCTCGGTGATATTGAGCTTCGTCGGTGCGCTTCACTggg                        <  1:315820/149‑1 (MQ=255)
                                                                                                                              tGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGCTCGGCTATGGCGCGGTGATATTGAGCTTCGTCGGTGCCCTTCACTggg                        <  2:126639/143‑1 (MQ=255)
                                                                                                                              tGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGCTCGGCTATGGCGCGGTGATATTGAGCTTCGTCGGTGCCCTTCACTggg                        >  1:126639/1‑143 (MQ=255)
                                                                                                                                tCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTATTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTGAGCTTCGTCGGTGCCCTTCACTGGGGGTTCGc                 >  5:291194/1‑148 (MQ=255)
                                                                                                                                         aCGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCgatg                                                                               >  6:84657/1‑77 (MQ=255)
                                                                                                                                         aCGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCgatg                                                                               <  5:84657/77‑1 (MQ=255)
                                                                                                                                              ggcCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTGAGCTTCGTCGGTGCCCTTCACTGGGGGTTCGCCATGACGTTGCAGGa  >  6:193316/1‑149 (MQ=255)
                                                                                                                                              |                                                                                                                                                    
CCCCTCGACGCGACACGAATTCCTGAACCTCATTGGACGACACAATTGACAT‑CCGATCTTGAACCGTTGCGAAGGGGCGCCCAGATGAGTTCCGTTGCTACTGCTTTATCTCCAAGCCGCTTCACTGTCCTGGGTTACGGCGGCCTGCTGCCGTTTATTGGTTTGACGCTGCTCATCCTTTTTTGGGCTGAATATCGAGCGTTTTTCTCGATGATGCTGGTCGGCTATGGCGCGGTGATATTGAGCTTCGTCGGTGCCCTTCACTGGGGGTTCGCCATGACGTTGCAGGA  >  NC_002947/2859680‑2859969

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑