Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 1,105,994 T→C T12T (ACT→ACC)  pdhD → Dihydrolipoyl dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,105,9940TC96.5% 102.8 / ‑6.3 29T12T (ACT→ACC) pdhDDihydrolipoyl dehydrogenase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (15/13);  minor base G (0/1);  total (15/14)
Fisher's exact test for biased strand distribution p-value = 4.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCATTAAGCTTTGACCACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACTATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTAAACGTAGGATGTATTCCTTCAAAAGCATTACT  >  USA300TCH1516_ALE/1105848‑1106134
                                                                                                                                                  |                                                                                                                                            
tCATTAAGCTTTGACCACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACcat                                                                                                                                            <  1:42271/149‑1 (MQ=255)
     aaGCTTTGACCACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTaa                                                                                                                                       >  1:22924/1‑149 (MQ=255)
     aaGCTTTGACCACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGATTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGCAACAGATACCATAGTaa                                                                                                                                       >  1:225281/1‑149 (MQ=255)
         tttGACCACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCgg                                                                                                                                   >  1:134619/1‑149 (MQ=255)
         tttGACCACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCgg                                                                                                                                   >  2:156946/1‑149 (MQ=255)
                acaGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGt                                                                                                                            >  2:118299/1‑149 (MQ=255)
                     cAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCtgg                                                                                                                       <  2:274423/149‑1 (MQ=255)
                        aTTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCtggtgg                                                                                                                    <  2:193320/149‑1 (MQ=255)
                            aTGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATAc                                                                                                                <  1:204741/149‑1 (MQ=255)
                                                 cAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCt                                                                                           <  2:58243/149‑1 (MQ=255)
                                                              tAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACaaa                                                                              >  2:31377/1‑149 (MQ=255)
                                                                aaCGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACaaaaa                                                                            >  1:164228/1‑149 (MQ=255)
                                                                 tcGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAg                                                                           <  1:141157/148‑1 (MQ=255)
                                                                   gTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTa                                                                         <  2:270923/149‑1 (MQ=255)
                                                                           aataaaCCAGAAATATTATTAATGGAGAAAAAAAAAATAGTAGTTGGAGATTTCCCAATTGAAAAAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGAAAAAAAAAAAAAAAAAGTAACAATCGt                                                                 <  2:214452/149‑1 (MQ=255)
                                                                            ataatCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGtt                                                                >  1:73935/1‑149 (MQ=255)
                                                                            ataatCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGtt                                                                >  1:93212/1‑149 (MQ=255)
                                                                            ataatCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGtt                                                                >  1:260336/1‑149 (MQ=255)
                                                                                  cAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCACAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGAAAAAAAAAAACAAAAAGTAACAATCGTTGAGaaa                                                          <  2:94462/149‑1 (MQ=255)
                                                                                           tattaATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATNAGGACAAAAAGTNACAATCGTTGAGAAAGGTAATCtt                                                 <  1:155891/149‑1 (MQ=255)
                                                                                              taATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTtggt                                              >  2:77459/1‑149 (MQ=255)
                                                                                                aTGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTtggtgg                                            >  1:135175/1‑149 (MQ=255)
                                                                                                            aaCGTGGTAGTTGGAGTTTTCGCAAGTGAAACAGATAGCATAGGAATTGGTGCAGGTCCTGGTGGATACGTTGCAGGGATTCGTGCGGCTCGATTAGTACAAAGAGTAACTGTCGTGGAGAAAGGTAATCTTGGTGGTGTTTGCTTaaa                                <  2:225281/149‑1 (MQ=255)
                                                                                                            aaCATGGTAGTTGGAGATTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTaaa                                <  2:22924/149‑1 (MQ=255)
                                                                                                                          agaTTTCCCAATTGAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTAAACGTAGGATGTATTc                  >  1:111009/1‑149 (MQ=255)
                                                                                                                             tttCCCAATTGAAACAGATACGATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGAAATTCGTGCAGATCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTAAACGTAGGATGTATTCCtt               <  2:110724/149‑1 (MQ=255)
                                                                                                                                       gAAACAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTAAACGTAGGATGTATTCCTTCAAAAGCAtt     >  1:33473/1‑149 (MQ=255)
                                                                                                                                        aaaCAGATACCAGAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATGAGGACAAAAAGTTACAATCGTGTATAAATGTTATCGTGGTGGTGTTTGCGTAAACGTATGATGTAGTCCGTCAAAAGCATta    >  1:140029/1‑149 (MQ=255)
                                                                                                                                          aCAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTAAACGTAGGATGTATTCCTTCAAAAGCATtact  <  1:7239/149‑1 (MQ=255)
                                                                                                                                          aCAGATACCATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTAAACGTAGGATGTATTCCTTCAAAAGCATtact  <  1:195816/149‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                            
TCATTAAGCTTTGACCACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTAAATAATCCAGAATTATTATTAATGGAGGGGTAAAACATGGTAGTTGGAGATTTCCCAATTGAAACAGATACTATAGTAATCGGAGCAGGTCCTGGTGGATACGTTGCAGCAATTCGTGCAGCTCAATTAGGACAAAAAGTAACAATCGTTGAGAAAGGTAATCTTGGTGGTGTTTGCTTAAACGTAGGATGTATTCCTTCAAAAGCATTACT  >  USA300TCH1516_ALE/1105848‑1106134

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑