Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,703,098 C→T 8.3% L85L (CTC→CTT)  PP_2369 → leucine‑rich repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,703,0980CT 8.3% 135.4 / 2.4 48L85L (CTC→CTT) PP_2369leucine‑rich repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base C (20/24);  new base T (2/2);  total (22/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.73e-01

TTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGAAATGCAGCCTGGCTGGTTC  >  NC_002947/2702957‑2703236
                                                                                                                                             |                                                                                                                                           
tttGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTgg                                                                                                                                     >  5:176224/1‑149 (MQ=255)
tttGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGATCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTgg                                                                                                                                     >  2:146121/1‑149 (MQ=255)
  tGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGTCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCGAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGt                                                                                                                                    <  4:281080/148‑1 (MQ=255)
    caccAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGa                                                                                                                                  <  7:80821/146‑1 (MQ=255)
     gcCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGa                                                                                                                                  >  7:264566/1‑147 (MQ=255)
     gcCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGa                                                                                                                                  <  8:264566/147‑1 (MQ=255)
      ccAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGAccc                                                                                                                               <  7:120051/149‑1 (MQ=255)
                     ggACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGt                                                                                                                <  3:164042/149‑1 (MQ=255)
                      gACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTc                                                                                                               >  1:249160/1‑149 (MQ=255)
                      gACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTc                                                                                                               >  7:248558/1‑149 (MQ=255)
                       aCCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCg                                                                                                              <  3:32774/149‑1 (MQ=255)
                        ccAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGa                                                                                                             >  5:317238/1‑149 (MQ=255)
                         cAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGa                                                                                                             >  8:78026/1‑148 (MQ=255)
                           aGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGatat                                                                                                          <  1:267460/149‑1 (MQ=255)
                           aGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGatat                                                                                                          <  7:78026/149‑1 (MQ=255)
                             tAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCg                                                                                                        >  5:220420/1‑149 (MQ=255)
                             tAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCg                                                                                                        >  5:225564/1‑149 (MQ=255)
                                            gggCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGc                                                                                         <  6:225564/149‑1 (MQ=255)
                                            gggCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGc                                                                                         <  6:220420/149‑1 (MQ=255)
                                             ggCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCa                                                                                        <  8:134963/149‑1 (MQ=255)
                                                      ccccTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAacac                                                                               <  8:153894/149‑1 (MQ=255)
                                                      ccccTTGGATGAGCTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAacac                                                                               <  4:330779/149‑1 (MQ=255)
                                                              aTGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTc                                                                       <  3:154059/149‑1 (MQ=255)
                                                                   ttCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCAc                                                                  <  6:317238/149‑1 (MQ=255)
                                                                      gCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTg                                                                                                    >  4:162196/1‑112 (MQ=255)
                                                                      gCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCAcc                                                                 >  3:235492/1‑147 (MQ=255)
                                                                       ccGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAg                                                              >  4:118045/1‑149 (MQ=255)
                                                                                  cTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTtctct                                                    <  8:248558/148‑1 (MQ=255)
                                                                                  cTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTtctct                                                    <  2:249160/148‑1 (MQ=255)
                                                                                   tCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCAcc                                                                 >  3:26049/1‑134 (MQ=255)
                                                                                   tCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCAcc                                                                 <  4:26049/134‑1 (MQ=255)
                                                                                   tCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGa                                                             <  3:121078/138‑1 (MQ=255)
                                                                                   tCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGa                                                             >  4:121078/1‑138 (MQ=255)
                                                                                     caaCGTGCGCCCGAGGCCCGTTCGATCAAGGAGGTAGACCTGCGCCAGTCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTcg                                                  <  8:18587/146‑1 (MQ=255)
                                                                                      aaCGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCCCACAGACGCTTCTCTcggcg                                               >  1:228951/1‑149 (MQ=255)
                                                                                                    gCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCAc                                                                  <  8:353508/116‑1 (MQ=255)
                                                                                                    gCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCAc                                                                  >  7:353508/1‑116 (MQ=255)
                                                                                                        gTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCTGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCAc                             >  5:321972/1‑149 (MQ=255)
                                                                                                             aTCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGaaaa                        <  1:146121/149‑1 (MQ=255)
                                                                                                              tCAAGCAGGTAGACCTGCGCCAGGCTCAGCTT‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCGAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAg                       >  5:319251/1‑149 (MQ=255)
                                                                                                              tCAAGCAGGTAGACCTGCGCCAGGCTCAGCTT‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAg                       >  7:159349/1‑149 (MQ=255)
                                                                                                                 aGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGCCGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGa                     >  1:173906/1‑148 (MQ=255)
                                                                                                                  gCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGaaa                   >  3:241946/1‑149 (MQ=255)
                                                                                                                    aGGTAGACCTGCGCCAGGCTCAGCTCGAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGAAAt                  >  1:3559/1‑149 (MQ=255)
                                                                                                                       tAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGAAATGCAg              <  6:176224/149‑1 (MQ=255)
                                                                                                                               cgcCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGAAATGCAGCctggc        <  4:235492/147‑1 (MQ=255)
                                                                                                                                  gagtctcagatc‑agGTTGGTGACGCTCCAGCCAATACCGTCGTTTACGCCTGCTTTACCTAGCACGTCAACACGCAGCGTGAGCACCGTGAAGCTTTTCTCGGCGGCACTGCATTACTTACACGAAAATGATATGCAGCCTGGCTGGtt   <  2:228951/145‑1 (MQ=255)
                                                                                                                                   aGGCTCAGCTT‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGAAATGCAGCCTGGCTGGTTc  <  8:159349/149‑1 (MQ=255)
                                                                                                                                   aGGCTCAGCTT‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGAAATGCAGCCTGGCTGGTTc  <  6:319251/149‑1 (MQ=255)
                                                                                                                                             |                                                                                                                                           
TTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTC‑AGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCTCGGCGGCACTGCATAACTTCCACGAAAAGGAAATGCAGCCTGGCTGGTTC  >  NC_002947/2702957‑2703236

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: ‑