Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,474,259 A→G 8.0% L426P (CTG→CCG)  PP_3964 ← transposase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,474,2590AG 8.0% 139.4 / 3.1 50L426P (CTG→CCG) PP_3964transposase
Reads supporting (aligned to +/- strand):  ref base A (24/22);  new base G (2/2);  total (26/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.78e-01

CGCGCCGACTGGATCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATCGGCACCGCCAATTCTTGTCGTATTCGC  >  NC_002947/4474112‑4474405
                                                                                                                                                   |                                                                                                                                                  
cgcgcCGACTGGATCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCa                                                                                                                                                    <  5:169139/148‑1 (MQ=255)
 gcgcCGACTGGATCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAgg                                                                                                                                                  >  3:96810/1‑149 (MQ=255)
       aCTGGATCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCa                                                                                                                                                    <  3:164642/141‑1 (MQ=255)
       aCTGGATCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCa                                                                                                                                                    >  4:164642/1‑141 (MQ=255)
            aTCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCGGGTAgcgctgacg                                                                                                                                       >  4:288498/1‑144 (MQ=255)
             tCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGTGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAgc                                                                                                                                      >  2:13806/1‑149 (MQ=255)
             tCAAACTCATGATTGCCGCAGCCCGCTTACCGCAGCGCAGGGATCCCGCAAAAAACCAGTACGAGCGCCCGAGTGCCCATGGCCGTATCTCGTTATCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCACGTAGCGCGTCCgc                                                                                                                                      >  7:246104/1‑149 (MQ=18)
              cAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAgcg                                                                                                                                     >  4:315157/1‑149 (MQ=255)
                        aTTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCGGGTAGCGCTGACGCGCTAcctgga                                                                                                                            <  3:288498/148‑5 (MQ=18)
                             cGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGTGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCa                                                                                                                      <  1:13806/149‑1 (MQ=255)
                                     gCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTaa                                                                                                              >  6:140874/1‑149 (MQ=255)
                                     gCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTaa                                                                                                              <  5:13984/149‑1 (MQ=255)
                                           cGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAgg                                                                                                        <  5:140874/149‑1 (MQ=255)
                                            gCTGCGGAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCTATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAggg                                                                                                       <  8:144464/149‑1 (MQ=255)
                                              tGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCGGGTAGCGCTGACGCGCTAcctgga                                                                                                                            <  3:59347/126‑5 (MQ=17)
                                              tGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCGGGTAGCGCTGACGCGCTAcctgga                                                                                                                            >  4:59347/1‑122 (MQ=17)
                                                cgcAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCttt                                                                                                   >  3:48381/1‑149 (MQ=255)
                                                cgcAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCttt                                                                                                   >  2:101902/1‑149 (MQ=255)
                                                 gcAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTg                                                                                                  >  8:177208/1‑149 (MQ=255)
                                                  cAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTgg                                                                                                 <  8:91829/149‑1 (MQ=255)
                                                   aGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCAATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTTTAATCGAGGGCTTTGGc                                                                                                >  8:240338/1‑149 (MQ=255)
                                                       aTCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTg                                                                                            <  4:48381/149‑1 (MQ=255)
                                                        tCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTgg                                                                                           <  4:282769/149‑1 (MQ=255)
                                                          ccGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCt                                                                                         <  1:101902/149‑1 (MQ=255)
                                                             cAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGAt                                                                                      <  4:258828/149‑1 (MQ=255)
                                                                   aCCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTg                                                                                <  4:96810/149‑1 (MQ=255)
                                                                    ccAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTgg                                                                               >  7:150210/1‑149 (MQ=255)
                                                                     cAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTggg                                                                              >  4:350156/1‑149 (MQ=255)
                                                                        ttCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCAc                                                                           <  8:150210/149‑1 (MQ=255)
                                                                           gAGCGCCCGAGGGGCCCTGGCCGTATCTGGGTTGCGCCCTGGTTGGTGTCGTTGGGCACAGCCCCATCTTCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCa                                                                         <  8:246104/148‑1 (MQ=14)
                                                                                      tGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAg                                                             >  4:115170/1‑149 (MQ=255)
                                                                                        cccATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGATGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGc                                                            >  7:276561/1‑148 (MQ=255)
                                                                                          cATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCaa                                                         <  3:315157/149‑1 (MQ=255)
                                                                                           aTGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAAc                                                        <  7:177208/149‑1 (MQ=255)
                                                                                                cGTATCTGGTTTTCGACCTGGTTTATGTCGATGGACACACCCCAAAAAAACAAATAGCGAAACAGCACAACACAGAGATTCAGAATGTAATCGAGGGATTTGGCCGTGGCTGAACAATTGGGCACCAGGTCTAGCTGAGACaaaaga                                                     >  7:54085/1‑143 (MQ=255)
                                                                                                cGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCa                                                                         <  3:46282/127‑1 (MQ=40)
                                                                                                cGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCa                                                                         >  4:46282/1‑127 (MQ=40)
                                                                                                    tCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCa                                               >  3:243593/1‑149 (MQ=255)
                                                                                                     cTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCAt                                              >  3:195578/1‑149 (MQ=255)
                                                                                                        gTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATg                                             <  4:195578/147‑1 (MQ=255)
                                                                                                        gTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCAAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTTATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCa                                           <  7:240338/149‑1 (MQ=255)
                                                                                                             cGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGc                                                            >  6:315285/1‑127 (MQ=255)
                                                                                                             cGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGc                                                            <  5:315285/127‑1 (MQ=255)
                                                                                                                   ggTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAg                                 >  4:330243/1‑148 (MQ=255)
                                                                                                                        ttgtCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATCgg                           >  6:171681/1‑149 (MQ=255)
                                                                                                                          gtCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATCGGCa                         >  8:191762/1‑149 (MQ=255)
                                                                                                                                 ggCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGt                                                                      >  7:67666/1‑97 (MQ=255)
                                                                                                                                 ggCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGt                                                                      <  8:67666/97‑1 (MQ=255)
                                                                                                                                   cacaGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATc                             >  6:31009/1‑136 (MQ=255)
                                                                                                                                   cacaGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATc                             <  5:31009/136‑1 (MQ=255)
                                                                                                                                    acaGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATCGGCACCGCCAATTc               <  4:243593/149‑1 (MQ=255)
                                                                                                                                               atcCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATCGGCACCGCCAATTCTTGTCGTATTc    <  8:54085/149‑1 (MQ=255)
                                                                                                                                                 ccAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATCGGCACCGCCAATTCTTGTCGTATTCGc  >  5:204722/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                  
CGCGCCGACTGGATCAAACTCATGATTGCCGCAGCCCGCTTACCGCTGCGCAGGGATCCCGCAAATAACCAGTTCGAGCGCCCGAGTGCCCATGGCCGTATCTGGTTTTCGACCTGGTTGTTGTCGATGGGCACAGCCCCATCATCCAGGTAGCGCGTCAGCGCTACCCAGCGTTTCAGGCTGTAATCGAGGGCTTTGGCCGTGGCTGATCCATTGGGCACCAGGTCTCGCTGAGCCAACATCCAGTCATGCAGTTTTTTGAGGATCGGCACCGCCAATTCTTGTCGTATTCGC  >  NC_002947/4474112‑4474405

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: ‑