Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,482,922 T→C 11.8% T6368A (ACT→GCT)  ebh_1 ← Extracellular matrix‑binding protein ebh

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,482,9220TC11.8% 81.6 / 4.1 34T6368A (ACT→GCT) ebh_1Extracellular matrix‑binding protein ebh
Reads supporting (aligned to +/- strand):  ref base T (11/19);  new base C (2/2);  total (13/21)
Fisher's exact test for biased strand distribution p-value = 6.27e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.30e-01

CTTCGATTTGTGATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATCTGTAAAGTTCACTT  >  USA300TCH1516_ALE/1482796‑1483062
                                                                                                                              |                                                                                                                                            
ttttgtttttTGATGTTATATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTa                                                                                                                                <  2:337095/135‑1 (MQ=255)
tttCGATTTGTGATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATGCTTAGCAGTCGTTACTTGATTTa                                                                                                                                <  1:344986/140‑1 (MQ=255)
 ttCGTTTTGTGATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTaa                                                                                                                               <  2:109016/141‑1 (MQ=255)
   cGATTTGTGATGTTAAATCTTGTTTTTGTGCCTTCTTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGCTTTAAtt                                                                                                                             >  2:252251/1‑140 (MQ=255)
   cGATTTGTGATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGCCGTTACTTGATTTAATg                                                                                                                             >  2:324848/1‑141 (MQ=255)
   cGATTTGTGATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGCCGTTACTTGATTTAATg                                                                                                                             >  2:118372/1‑141 (MQ=255)
   cGATTTGTGATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGAATTCTTAGCAGTCGTTACTTGATTTAAtt                                                                                                                             >  2:265555/1‑140 (MQ=255)
        tgtgATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCt                                                                                                                        <  2:296418/141‑1 (MQ=255)
          tgATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAACTTc                                                                                                                      >  2:93303/1‑141 (MQ=255)
                  aaTCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTtgtg                                                                                                              >  1:399161/1‑141 (MQ=255)
                       tGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGCCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTc                                                                                                         <  1:118372/141‑1 (MQ=255)
                       tGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGCCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTc                                                                                                         <  1:324848/141‑1 (MQ=255)
                           tttGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCa                                                                                                     <  1:295980/141‑1 (MQ=255)
                             tgtgCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCata                                                                                                   >  1:222744/1‑141 (MQ=255)
                                gCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACAGTTGCGTCACCGTTTAAAGCAGTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCGTTCGTCATAttt                                                                                                <  1:187488/141‑1 (MQ=255)
                                        tAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCgtg                                                                                        <  1:104970/141‑1 (MQ=255)
                                          aGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGtgtg                                                                                      >  1:10473/1‑141 (MQ=255)
                                           gtgtgtTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGc                                                                                     <  2:355473/141‑1 (MQ=255)
                                                 tAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATc                                                                               <  1:123346/141‑1 (MQ=255)
                                                    tGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTaa                                                                            <  1:234028/141‑1 (MQ=255)
                                                       aCCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAAt                                                                         <  1:314405/141‑1 (MQ=255)
                                                         cTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATAc                                                                       >  1:346231/1‑141 (MQ=255)
                                                            aGTTTGCTTTCGCCTCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATACTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCtt                                                                    >  1:8176/1‑141 (MQ=255)
                                                               ttGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAg                                                                 <  1:26723/141‑1 (MQ=255)
                                                                      cGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGt                                                          <  2:55571/141‑1 (MQ=255)
                                                                       gCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTa                                                         <  1:12827/141‑1 (MQ=255)
                                                                                   gCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTtgtg                                             >  1:316807/1‑141 (MQ=255)
                                                                                                                aGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATc                >  1:311881/1‑141 (MQ=255)
                                                                                                                aGCATTATTAGCAGTCGTTACTTGATTTAATGGAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATc                <  2:77160/141‑1 (MQ=255)
                                                                                                                  ccccattAGCTGTCTTTTCTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATCTg              <  2:143077/136‑1 (MQ=255)
                                                                                                                   aTTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTATTACCTTGGTCAGCATCTGt             <  1:289482/141‑1 (MQ=255)
                                                                                                                    ttCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTGCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATCTGTa            <  1:150157/141‑1 (MQ=255)
                                                                                                                        tAGCAGTCGGTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATCTGTAAAGt        <  2:114509/141‑1 (MQ=255)
                                                                                                                           cAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATCTGTACAGTTCa     >  2:304616/1‑141 (MQ=255)
                                                                                                                              tCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATCTGTAAAGTTCACtt  <  1:400924/141‑1 (MQ=255)
                                                                                                                              |                                                                                                                                            
CTTCGATTTGTGATGTTAAATCTTGTTTTTGTGCATTATTTAAGTGTGTTAATGTACCTAAGTTTGCTTTCGCATCTGATTTTGCTTGTCTTACATTTGCGTCACCGTTTAAAGCATTCTTAGCAGTCGTTACTTGATTTAATGCAGCTTCAACTTGTGCTTTCGTCATATTTTGACCGTGTGCTTTATCTAAAATACCTTGAGCATTCGTAACAGCATTTGTGTAAGCATCTTTCTTACCTTGGTCAGCATCTGTAAAGTTCACTT  >  USA300TCH1516_ALE/1482796‑1483062

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑