Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,522,878 C→A 9.1% L1377M (CTG→ATG)  PP_2212 → leucine‑rich repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,522,8780CA 9.1% 125.3 / 4.2 44L1377M (CTG→ATG) PP_2212leucine‑rich repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base C (21/19);  new base A (2/2);  total (23/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.92e-01

GCCTACCAGGATGGCCGGCAGCGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACCAAATGTTCGATGCCCTCAGT  >  NC_002947/2522734‑2523021
                                                                                                                                                |                                                                                                                                               
gCCTACCAGGATGGCCGGCAGCGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGa                                                                                                                                              >  5:203663/1‑148 (MQ=255)
 ccTACCAGGATGGCCGGCAGCGTCTGGCTGCCAGTGAACATGTCAACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGaca                                                                                                                                            >  4:171679/1‑149 (MQ=255)
    aCCAGGATGGCCGGCAGCGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAg                                                                                                                                         >  3:34250/1‑149 (MQ=255)
      cAGGATGGCCGGCAGCGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGc                                                                                                                                       >  6:112713/1‑149 (MQ=255)
               cGGCAGCGTCTGGCTGCCAGTGAACATGTCAACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGCTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTaga                                                                                                                              <  3:171679/149‑1 (MQ=255)
                ggCAGCGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGGATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTagag                                                                                                                             <  8:71257/149‑1 (MQ=255)
                   aGCGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGAt                                                                                                                          <  6:203663/149‑1 (MQ=255)
                     cGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGc                                                                                                                        <  7:217252/149‑1 (MQ=255)
                                      aCATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTAcgc                                                                                                       >  4:223579/1‑149 (MQ=255)
                                          gTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTAcgcgcgc                                                                                                   >  3:134606/1‑149 (MQ=255)
                                          gTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGAATTTCTGCGGGTTAcgcgcgc                                                                                                   >  5:141869/1‑149 (MQ=255)
                                            cGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGTGCATCCAGACGTATGCCATGCGCTATACCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTAcgcgcgcg                                                                                                  >  3:39027/1‑148 (MQ=255)
                                             gACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCa                                                                                                <  3:46103/149‑1 (MQ=255)
                                                cAGTTCGCATTGTGGATGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGTCCAACCAGCCGTATTCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAg                                                                                               <  4:39027/147‑1 (MQ=255)
                                                  gTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCa                                                                                           >  1:213937/1‑149 (MQ=255)
                                                   ttGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCAt                                                                                          <  2:224451/149‑1 (MQ=255)
                                                      gCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATc                                                                                         >  6:276005/1‑147 (MQ=255)
                                                       cATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAg                                                                                      <  4:34250/149‑1 (MQ=255)
                                                           ggggCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGc                                                                                   <  5:276005/148‑1 (MQ=255)
                                                                tggctTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAgg                                                                                                                            >  5:96088/1‑102 (MQ=255)
                                                                tggctTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAgg                                                                                                                            <  6:96088/102‑1 (MQ=255)
                                                                    ttACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGa                                                                           >  2:189627/1‑147 (MQ=255)
                                                                                aCTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAgc                                                             <  2:213937/149‑1 (MQ=255)
                                                                                    cGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAgcgc                                                           <  5:112713/147‑1 (MQ=255)
                                                                                      tAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGt                                                       >  8:55973/1‑149 (MQ=255)
                                                                                                cGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCg                                             >  8:126446/1‑149 (MQ=255)
                                                                                                      cccAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCt                                       <  3:223579/149‑1 (MQ=255)
                                                                                                           ccAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTgcgc                                   >  7:144465/1‑148 (MQ=255)
                                                                                                            cAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCa                                 <  8:144465/149‑1 (MQ=255)
                                                                                                            cAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGATGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTgcgc                                   >  4:227204/1‑147 (MQ=255)
                                                                                                            cAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGATGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTgcgc                                   >  4:223525/1‑147 (MQ=255)
                                                                                                                  tATGCCATGCGCTATCCCGATGCTGTCGCGATGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACa                           <  3:227204/149‑1 (MQ=255)
                                                                                                                  tATGCCATGCGCTATCCCGATGCTGTCGCGATGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACa                           <  3:223525/149‑1 (MQ=255)
                                                                                                                      ccATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCACAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGCCCGATAGCCTGAGCACGAGCGCGTTCTGGCGCCGTTCCCTGCGCCAGCAACATGAc                       >  8:191688/1‑149 (MQ=255)
                                                                                                                       cATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGAcc                      <  7:126446/149‑1 (MQ=255)
                                                                                                                        aTGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGgcgc                                               >  5:62620/1‑123 (MQ=255)
                                                                                                                        aTGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGgcgc                                               <  6:62620/123‑1 (MQ=255)
                                                                                                                          gcgcTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACCaaa                   >  3:212236/1‑149 (MQ=255)
                                                                                                                                  ccGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACCAAATGTTc              <  5:202265/146‑1 (MQ=255)
                                                                                                                                  ccGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACCAAATGTTCGa            <  3:108565/148‑1 (MQ=255)
                                                                                                                                  ccGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACCAAATGTTCGa            <  1:189627/148‑1 (MQ=255)
                                                                                                                                  acgatcatGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCAACGAGCGCCTGACCGATAGCCTGATCCAGCGCGCCTTCTGGCCCCGTTACCTGCGCCAGCAACATCACCAAATGTTc              >  6:202265/8‑146 (MQ=255)
                                                                                                                                        cTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACAAAATGTTCGATGCCCt      >  6:145558/1‑148 (MQ=255)
                                                                                                                                           tCGCGCTGACACAGGCCCAGGTAGAGGATGCAATTCTGCTGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACCAAATGTTCGATCCAATCAGt  >  8:193901/1‑149 (MQ=255)
                                                                                                                                             gcgcTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGc                                                                                   >  4:250965/1‑66 (MQ=255)
                                                                                                                                             gcgcTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGc                                                                                   <  3:250965/66‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                               
GCCTACCAGGATGGCCGGCAGCGTCTGGCTGCCAGTGAACATGTCGACCAGTTGGCATTGGGGCTGGCTTACAGGGTGCAACTTCGTAGCCGTTTGCGGTTGCCCAACCAGCCGTATGCCATGCGCTATCCCGATGCTGTCGCGCTGACACAGGCCCAGGTAGAGGATGCATTTCTGCGGGTTACGCGCGCGCAGACCATCGAGGGCCTGACCGATAGCCTGAGCCAGCGCGCGTTCTGGCGCCGTTACCTGCGCCAGCAACATGACCAAATGTTCGATGCCCTCAGT  >  NC_002947/2522734‑2523021

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑