Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 135,594 C→T P87L (CCA→CTA)  arcB_1 → Delta(1)‑pyrroline‑2‑carboxylate reductase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE135,5940CT96.8% 81.6 / NA 31P87L (CCA→CTA) arcB_1Delta(1)‑pyrroline‑2‑carboxylate reductase
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (13/17);  total (14/17)
Fisher's exact test for biased strand distribution p-value = 4.52e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCGCTTAAGCCGTATTTAAGACAGGATCCTGAAAATGGACACATCGCAGATCGAATTATTGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCCATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGCAGCAGTTTCAGTGATTGCAG  >  USA300TCH1516_ALE/135460‑135725
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aCCGCTTAAGCCGTATTTAAGACAGGATCCTGAAAATGGACACATCGCAGATCGAATTATTGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGaa                                                                                                                               >  1:100438/1‑141 (MQ=255)
aCCGCTTAAGCCGTATTTAAGACAGGATCCTGAAAATGGACACATCGCAGATCGAATTATTGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGaa                                                                                                                               >  1:261123/1‑141 (MQ=255)
          ccGTATTTAAGACAGGATCCTGAAAATGGACACATCGCAGATCGAATTATTGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAATAAGCACGACAATACATCGAAACGTAATATg                                                                                                                     >  2:194395/1‑141 (MQ=255)
               tttAAGACAGGATCATGAAAATGGACACATCGCAGATCGAATTATTGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCg                                                                                                                <  1:1318/141‑1 (MQ=255)
                              tGAAAAGGGACGCAGCGGAGATTGCATTCTTGTAATGCCAAGTCATATGGGGGGTGAGCCCGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGATAATCTATCGAAACGTAATATGGCGCGTGCAAGTGGCGTCat                                                                                                 <  2:123434/141‑1 (MQ=255)
                                   atcgACACATCGCAGACCGAATTACTGCAATGCCAAGTCATATCGGTGGTGAACACCCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTAttt                                                                                            <  1:184262/138‑1 (MQ=255)
                                          caTCGCAGATCGAATTATTGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGa                                                                                     <  1:169789/141‑1 (MQ=255)
                                                       attattGCAATGCCAAGTCATATCGGTGGTGAACACGAAATTTAAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATAGAGAGTACAAGTGGCGTCAATATTTTGAATAATCCAGAAACGAAt                                                                        >  2:153862/1‑141 (MQ=255)
                                                           atGCAATGTGAAGGCATAGCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATc                                                                    <  2:197481/140‑1 (MQ=255)
                                                            tGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATcc                                                                   >  2:141899/1‑141 (MQ=255)
                                                                     aaGTCATCTGGGTGTTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGt                                                          <  1:263854/141‑1 (MQ=255)
                                                                          atatCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATgg                                                     <  1:84762/141‑1 (MQ=255)
                                                                          atatCGGTGGTGAACACGCAATTTCAGGGATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATgg                                                     <  1:228597/141‑1 (MQ=255)
                                                                              cgtgggtgAACACGGAATTGCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGc                                                 <  1:227241/137‑1 (MQ=255)
                                                                              cGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCTAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGc                                                 <  2:120705/141‑1 (MQ=255)
                                                                              cGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGc                                                 >  1:200522/1‑141 (MQ=255)
                                                                                 tggtgAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGGGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAg                                              >  2:170601/1‑141 (MQ=255)
                                                                                 tggtgAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAg                                              >  1:118045/1‑141 (MQ=255)
                                                                                    ttaccacGCAATTTCAGGTATGAAGTGGATGGGTAGTAAGAACGACAATCTATCGAAACGTAATACGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGttt                                           <  1:130365/137‑1 (MQ=255)
                                                                                            aaaTTTCAAGTCTTATGTGAATAGTTAGTAAGCACGACAATTTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATtagta                                   <  2:183139/140‑1 (MQ=255)
                                                                                                    ggTATTAAGTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATTAAGCGTGCAAGTGGCGTCATTATTTTGAATAATCCAGAAACGAATTATCCAATTGCAGTTATGAAAACAAGTTTAATTAGTAATATACGt                           >  2:75790/1‑141 (MQ=255)
                                                                                                      tATTAAGGGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTAc                         <  2:69941/141‑1 (MQ=255)
                                                                                                            gTGGATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTgcagc                   >  2:23312/1‑141 (MQ=255)
                                                                                                              ggATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGcagcag                 >  1:267352/1‑141 (MQ=255)
                                                                                                              ggATAGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGcagcag                 >  1:214008/1‑141 (MQ=255)
                                                                                                                  aGGTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTACAGCAGTTTc             >  2:117397/1‑141 (MQ=255)
                                                                                                                   ggTAGTAAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGCAGCAGTTTCa            <  1:173165/141‑1 (MQ=255)
                                                                                                                    gtagtaAGCATGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTTATTATTTTGAATGATCCAGTAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGCAGCAGTTTCAg           <  2:1856/141‑1 (MQ=255)
                                                                                                                     tagtaAGCACGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGCAGCAGTTTCAGt          >  1:184211/1‑141 (MQ=255)
                                                                                                                           gCACGACAAGCTATCGAGACGTAATATGGAGCGGGCAAGTGTCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGCAGCAGTTTCAGTGATTgc    <  2:27649/141‑1 (MQ=255)
                                                                                                                             aCGACAATCTATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGCAGCAGTTTCAGTGATTgcag  <  2:139520/141‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                   
ACCGCTTAAGCCGTATTTAAGACAGGATCCTGAAAATGGACACATCGCAGATCGAATTATTGCAATGCCAAGTCATATCGGTGGTGAACACGCAATTTCAGGTATTAAGTGGATAGGTAGTAAGCACGACAATCCATCGAAACGTAATATGGAGCGTGCAAGTGGCGTCATTATTTTGAATGATCCAGAAACGAATTATCCAATTGCAGTTATGGAAGCAAGTTTAATTAGTAGTATGCGTACTGCAGCAGTTTCAGTGATTGCAG  >  USA300TCH1516_ALE/135460‑135725

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑