Predicted mutation
evidence seq id position mutation annotation gene description
RA CP002094 1,191,576 C→T Q309* (CAA→TAA)  LLNZ_06295 → D‑alanine transfer protein DltD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0020941,191,5760CT98.7% 304.0 / NA 75Q309* (CAA→TAA) LLNZ_06295D‑alanine transfer protein DltD
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base T (45/29);  minor base A (1/0);  total (46/29)
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

GTTTGGAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAACAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGGTGTCTCTG  >  CP002094/1191480‑1191669
                                                                                                |                                                                                             
gTTTGGAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTcaataa                                                                                             <  2:808673/99‑1 (MQ=255)
  ttGGAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACt                                                                                           <  2:1332418/99‑1 (MQ=255)
  ttGGAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACt                                                                                           >  1:266537/1‑99 (MQ=255)
   tGGAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACtt                                                                                          <  1:665876/99‑1 (MQ=255)
   tGGAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACtt                                                                                          <  2:1564159/99‑1 (MQ=255)
     gAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCt                                                                                        >  2:536154/1‑99 (MQ=255)
       aTCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTaa                                                                                      >  2:1310049/1‑99 (MQ=255)
         cAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAAt                                                                                    <  2:841894/99‑1 (MQ=255)
          agagAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATg                                                                                   >  2:510684/1‑99 (MQ=255)
          agagAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATg                                                                                   <  1:758755/99‑1 (MQ=255)
           gaggATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGt                                                                                  <  2:1550136/99‑1 (MQ=255)
           gagaATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGt                                                                                  <  1:1398431/99‑1 (MQ=255)
             gaATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGttt                                                                                >  1:1391387/1‑99 (MQ=255)
             gaATAAAGTACAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGttt                                                                                <  2:1603755/99‑1 (MQ=255)
                  aaGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCt                                                                           <  2:1356989/99‑1 (MQ=255)
                  aaGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCt                                                                           >  2:1222395/1‑99 (MQ=255)
                     tCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGaa                                                                        >  1:285535/1‑99 (MQ=255)
                        aaaTATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAAt                                                                     <  1:1642651/99‑1 (MQ=255)
                              aaaCATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAAt                                                               <  2:358873/99‑1 (MQ=255)
                              aaaCATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAAt                                                               >  1:1242782/1‑99 (MQ=255)
                                aCATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGa                                                             >  2:545111/1‑99 (MQ=255)
                                   tCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTACTGAAAATCATAATGACGt                                                          >  1:75187/1‑99 (MQ=255)
                                    cTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGtt                                                         <  1:1238014/99‑1 (MQ=255)
                                      ggAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGtttt                                                       >  1:771977/1‑99 (MQ=255)
                                       gAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTa                                                      >  2:304911/1‑99 (MQ=255)
                                       gAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTa                                                      >  1:359604/1‑99 (MQ=255)
                                        aaaaTTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTAt                                                     >  1:359603/1‑99 (MQ=255)
                                         aaaTTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTAtt                                                    >  2:277686/1‑99 (MQ=255)
                                         aaaTTATAAAAAGAAAGTTTCTTATCT‑GAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTAttt                                                   >  1:34086/1‑99 (MQ=255)
                                          aaTTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTAttt                                                   >  2:1052511/1‑99 (MQ=255)
                                           aTTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTg                                                  >  1:1600710/1‑99 (MQ=255)
                                             tataAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGtt                                                >  2:186955/1‑99 (MQ=255)
                                               taAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTAt                                              >  2:821771/1‑99 (MQ=255)
                                                 aaaaGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTc                                            >  2:290800/1‑99 (MQ=255)
                                                 aaaaGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTc                                            >  1:621269/1‑99 (MQ=255)
                                                 aaaaGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTc                                            >  1:781303/1‑99 (MQ=255)
                                                 aaaaGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTc                                            <  1:1285554/99‑1 (MQ=255)
                                                   aagaaagTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCaa                                          <  1:304911/99‑1 (MQ=255)
                                                    agaaagTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAAc                                         <  1:305743/99‑1 (MQ=255)
                                                     gaaagTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAAcc                                        >  1:1128478/1‑99 (MQ=255)
                                                     gaaagTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAAcc                                        <  2:1234562/99‑1 (MQ=255)
                                                     gaaagTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAAcc                                        >  2:767982/1‑99 (MQ=255)
                                                       aagTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTg                                      <  2:809363/99‑1 (MQ=255)
                                                        agTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGt                                     >  1:113948/1‑99 (MQ=255)
                                                           ttCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCaa                                  <  1:1414830/99‑1 (MQ=255)
                                                            tCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAAt                                 >  1:72843/1‑99 (MQ=255)
                                                             cTTATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATg                                >  2:1133245/1‑99 (MQ=255)
                                                               tATCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGc                              <  1:1047234/99‑1 (MQ=255)
                                                                aTCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGGAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGct                             >  2:390670/1‑99 (MQ=255)
                                                                aTCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGct                             >  1:531000/1‑99 (MQ=255)
                                                                aTCTCGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGct                             >  2:368958/1‑99 (MQ=255)
                                                                  ctcGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGctct                           >  2:1041969/1‑99 (MQ=255)
                                                                   tcGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCtt                          <  1:1320722/99‑1 (MQ=255)
                                                                    cGAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTg                         <  2:524576/99‑1 (MQ=255)
                                                                     gAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTgg                        >  1:1043705/1‑99 (MQ=255)
                                                                     gAAAGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTgg                        >  2:285157/1‑99 (MQ=255)
                                                                      aaaGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGt                       >  2:1098727/1‑99 (MQ=255)
                                                                      aaaGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGt                       >  1:1268190/1‑99 (MQ=255)
                                                                      aaaGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGt                       >  1:1582161/1‑99 (MQ=255)
                                                                        aGTCCAGAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGtca                     <  2:869755/99‑1 (MQ=255)
                                                                              gAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCatat               >  2:817360/1‑99 (MQ=255)
                                                                              gAATATCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCatat               >  1:182307/1‑99 (MQ=255)
                                                                                atatCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATAc             >  2:562510/1‑99 (MQ=255)
                                                                                 tatCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACa            <  2:181765/99‑1 (MQ=255)
                                                                                 tatCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACa            <  2:781011/99‑1 (MQ=255)
                                                                                  atCAAAATTTTTAAAAAATTCTAAAAGTTTTTGTTGAAAAAAATAATGACGTTTTATTTTTTATTTAACCTGTCAATGGCTCTTTGTCATCATATACAg           >  2:367319/1‑99 (MQ=255)
                                                                                   tCAAGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAgg          >  2:90941/1‑99 (MQ=255)
                                                                                      aGATTTTCAATCACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGgtgt       <  1:238646/99‑1 (MQ=255)
                                                                                      aGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGgtgt       >  2:657181/1‑99 (MQ=255)
                                                                                      aGATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGgtgt       <  2:1076697/99‑1 (MQ=255)
                                                                                       gATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGGTGtc      >  1:459536/1‑99 (MQ=255)
                                                                                       gATTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGGTGtc      <  2:125860/99‑1 (MQ=255)
                                                                                        aTTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGGTGtct     <  1:510684/99‑1 (MQ=255)
                                                                                        aTTTTCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGATGtct     >  2:1651375/1‑99 (MQ=255)
                                                                                         ttttCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGGTGtctc    <  2:1269639/99‑1 (MQ=255)
                                                                                           ttCAATAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGGTGTCTCTg  >  1:393431/1‑99 (MQ=255)
                                                                                                |                                                                                             
GTTTGGAATCAGAGAATAAAGTCCAAATATAAACATCTGGAAAATTATAAAAAGAAAGTTTCTTATCTCGAAAGTCCAGAATATCAAGATTTTCAACAACTTCTAAATGTTTTTGCTGAAAATCATAATGACGTTTTATTTGTTATTCAACCTGTCAATGGCTCTTGGTCATCATATACAGGTGTCTCTG  >  CP002094/1191480‑1191669

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑