Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 94,164 G→A 8.7% Q5Q (CAG→CAA)  gloC_2 → Hydroxyacylglutathione hydrolase GloC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE94,1640GA 8.7% 133.7 / 2.4 43Q5Q (CAG→CAA) gloC_2Hydroxyacylglutathione hydrolase GloC
Reads supporting (aligned to +/- strand):  ref base G (18/21);  new base A (2/2);  total (20/23)
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

AGAAAGAAGAACTTAGAGATGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAGGTTTAACAATTACACAA  >  USA300TCH1516_ALE/94028‑94302
                                                                                                                                        |                                                                                                                                          
agaaagaaGAACTTAGAGATGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGtttt                                                                                                                                        >  2:219296/1‑141 (MQ=255)
 gaaagaaGAACTTAGAGATGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTa                                                                                                                                       >  2:177462/1‑141 (MQ=255)
  aaagaaGAACTTAGAGATGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTAc                                                                                                                                      <  1:356060/141‑1 (MQ=255)
      aagaaCTTAGAGATGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATa                                                                                                                                  >  1:48148/1‑141 (MQ=255)
             tAGAGATGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCAttt                                                                                                                           <  1:458047/141‑1 (MQ=255)
               gagaTGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTAt                                                                                                                         <  2:22220/141‑1 (MQ=255)
               gagaTGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTAt                                                                                                                         <  2:29355/141‑1 (MQ=255)
                agctaaaGTTGAGTACGGTGGTGTAGGCACTCATATTGCAGCTAATGAAACTGAGACTCATAATTTATTTATATAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTAAAATAACAATTTAtt                                                                                                                        >  2:41886/6‑140 (MQ=255)
                 gaTGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTAtct                                                                                                                       <  2:377707/141‑1 (MQ=255)
                     aaGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAg                                                                                                                   <  1:79692/141‑1 (MQ=255)
                         tGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGcatc                                                                                                               <  1:118439/141‑1 (MQ=255)
                                 gtggtgTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAg                                                                                                       <  2:177782/141‑1 (MQ=255)
                                   ggtgTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTg                                                                                                     >  1:65106/1‑141 (MQ=255)
                                      gtAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGt                                                                                                  <  2:305577/141‑1 (MQ=255)
                                      gtAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGt                                                                                                  <  2:37836/141‑1 (MQ=255)
                                          gCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTc                                                                                              <  2:349755/141‑1 (MQ=255)
                                               tataTTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTAAAGCATCATATTTAGTGGGTTGTCAACGt                                                                                         >  2:370791/1‑141 (MQ=255)
                                                    tGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAgg                                                                                    <  2:425204/141‑1 (MQ=255)
                                                         cTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAgg                                                                               >  2:340504/1‑141 (MQ=255)
                                                                aaaTGCGAATCATAATTTATTTATCTAATTAAATCTATAAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCaataat                                                                        >  1:243876/1‑141 (MQ=255)
                                                                aaaTGCGAATCATAATTTATTTATCTAATTAAAGCTATTAATAAAAGGATTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTTGTGTGTCAGCGTGCATTAGATNCattaat                                                                        >  2:345075/1‑141 (MQ=255)
                                                                aaaTGCGAATCATAATTTATTTATCTAATGAAATCTATTAATAAAAGGAGTTGTTATCATGGTTTTTAAACAATTTTACGATAATCATTTATCTCAAGCATCATATTGAGTGGGTTGTCAACGTACAGGAGAGGCaataat                                                                        >  2:183692/1‑141 (MQ=255)
                                                                aaaTGCGAATCATAATTTATTTATCGAATTAAATCTATTAAGAAAAGGAGTTGTTATCATGTTTTTTAAACAATTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGGTGTCAACGTACAGGAGAGGCaataat                                                                        >  2:183744/1‑141 (MQ=255)
                                                                    gCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAataataata                                                                    <  1:57862/141‑1 (MQ=255)
                                                                    gCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAataataata                                                                    <  1:368467/141‑1 (MQ=255)
                                                                                  atttatCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGa                                                      <  2:65106/141‑1 (MQ=255)
                                                                                       tCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTAt                                                 <  1:428925/141‑1 (MQ=255)
                                                                                       tCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTAt                                                 <  1:302466/141‑1 (MQ=255)
                                                                                                         taaAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTg                               >  2:209637/1‑141 (MQ=255)
                                                                                                         taaAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTg                               >  1:115259/1‑141 (MQ=255)
                                                                                                           aaaGGAGTTGTTATCATGTTTTTTAAACAGTTTTAAGATAATCATTTATCTCAAGCCTCATCTTTAGTGGGTTGTAAAAGCCCAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCa                             <  1:345075/141‑1 (MQ=255)
                                                                                                           aaaGGAGTTGTTATCATGTTTTTTAAACAATTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGACATAATACTAGCACCTGTTCGTGATTTATCGAAATATATAGAAGTTGCa                             <  1:183744/141‑1 (MQ=255)
                                                                                                           aaaGGAGTTGTTATCATGTTTTTTAAACAATTTTACGATAATCATTTATCTCAAGCATCATATTAAGTGGGTTGTCACCCTCCAGGAGCGGCAATAATCATCGACCCTGTTCGTGCTTTATCGAAATATATAGAAGTTGCa                             <  1:183692/141‑1 (MQ=255)
                                                                                                                 gttgttATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCt                       <  1:423459/141‑1 (MQ=255)
                                                                                                                     ttATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAg                   <  1:320676/141‑1 (MQ=255)
                                                                                                                     ttATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAg                   <  1:251752/141‑1 (MQ=255)
                                                                                                                              tttttAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCATATTCTGAAGGTTTAACaa          >  2:98051/1‑141 (MQ=255)
                                                                                                                              tttttAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAGGTTTAACaa          >  2:237539/1‑141 (MQ=255)
                                                                                                                                tttAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAGGTTTAACAAtt        >  2:225420/1‑141 (MQ=255)
                                                                                                                                 ttttttaGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCTAAATATATAGAAGTTGCAGCTTCTGAAGGTTTAACAAttt       >  2:81553/7‑140 (MQ=255)
                                                                                                                                     aCAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATCTATAGAAGTTGCAGATTCTGAAGGTTTAACAATTAcaca   >  1:340117/1‑141 (MQ=255)
                                                                                                                                     aCAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAGGTTTAACAATTAcaca   >  2:352215/1‑141 (MQ=255)
                                                                                                                                      cAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAGGTTTAACAATTACACaa  >  2:386099/1‑141 (MQ=255)
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AGAAAGAAGAACTTAGAGATGAAGTTGAGTACGGTGGTGTAGGCACTTATATTGGTGCTACTGAAAATGCGAATCATAATTTATTTATCTAATTAAATCTATTAATAAAAGGAGTTGTTATCATGTTTTTTAAACAGTTTTACGATAATCATTTATCTCAAGCATCATATTTAGTGGGTTGTCAACGTACAGGAGAGGCAATAATAATAGACCCTGTTCGTGATTTATCGAAATATATAGAAGTTGCAGATTCTGAAGGTTTAACAATTACACAA  >  USA300TCH1516_ALE/94028‑94302

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: ‑