Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 195,286 T→A intergenic (‑97/‑82) USA300HOU_RS00900 ← / → USA300HOU_RS00905 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE195,2860TA95.7% 71.5 / ‑4.8 24intergenic (‑97/‑82)USA300HOU_RS00900/USA300HOU_RS00905hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (1/0);  major base A (11/11);  minor base C (0/1);  total (12/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

TCTTTTTGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑TAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAGAACTAGAA  >  USA300TCH1516_ALE/195144‑195430
                                                                                                                                               |                                                                                                                                                
tCTTTTTGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATATTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑aaaaaa                                                                                                                                             >  1:316776/1‑148 (MQ=255)
tCTTTTTGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGTAAATATTTTTTACAGAATTTTATCTAAAT‑TT‑Taataaa                                                                                                                                            >  1:172455/1‑148 (MQ=255)
 cTTTTTGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑Aaaaaaa                                                                                                                                            <  1:190471/148‑1 (MQ=255)
          tCTAGCTAAACTTGCTACGACAGAGTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTaa                                                                                                                                   >  1:316605/1‑148 (MQ=255)
              gCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATc                                                                                                                               <  1:297426/148‑1 (MQ=255)
               cTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAAATATCTTAATATc                                                                                                                               <  1:123944/148‑1 (MQ=255)
                tAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCt                                                                                                                             >  1:372329/1‑148 (MQ=255)
                            gACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATa                                                                                                                 >  1:631591/1‑148 (MQ=255)
                               aGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTTATCCGATAAGa                                                                                                              >  1:312444/1‑148 (MQ=255)
                                    cTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATtat                                                                                                         <  1:100666/148‑1 (MQ=255)
                                               aTGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATAtttt                                                                                              >  1:153869/1‑148 (MQ=255)
                                                tGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATAttttt                                                                                             >  1:477535/1‑148 (MQ=255)
                                                  aTAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATATTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTc                                                                                           >  1:89438/1‑148 (MQ=255)
                                                           tatatataTGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGt                                                                                  <  1:524562/148‑1 (MQ=255)
                                                                  atGTTTATTTACTTATACCCTAACATGATTTTTATAATCTTTGAAAATATATTTTACAGAATTTTATCTAACTATT‑AAAAAAAATATCTTAATATCCTTTTATTCCGATAAGAATTATAGTAGTTTTTTTTCAACCATTGTtatctga                                                                           >  1:163674/1‑144 (MQ=255)
                                                                     tttatttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGt                                                                        <  1:252506/148‑1 (MQ=255)
                                                                        atttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCtt                                                                     <  1:478659/148‑1 (MQ=255)
                                                                              ttATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAAt                                                               >  1:202879/1‑148 (MQ=255)
                                                                                  aCCCTAACCTGATTTTTATCCTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACa                                                           <  1:13196/148‑1 (MQ=255)
                                                                                        aCATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTATTATTAATGA‑AATAtttt                                                    >  1:234449/1‑148 (MQ=255)
                                                                                         ttccaTTTTTATACGCATCCAAATTAGAGTTGACTGAATTTTATCTAAATATT‑AAAAAAAATATCCTAATATCCTTGTATTCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTAtttt                                                    <  1:13127/144‑1 (MQ=255)
                                                                                                           tGAAAATATATTTTACAGAATTTTATCTAAATATT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATc                                  <  1:251036/148‑1 (MQ=255)
                                                                                                             aaaaTATATTTTACAGAATTTTATCTAAATGTT‑AAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCtt                                >  1:630136/1‑148 (MQ=255)
                                                                                                                                        agtatT‑CAAAAAAATATATTATTCAGCATCGAATGCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAGAACTa     <  1:297968/146‑1 (MQ=255)
                                                                                                                                           atT‑AAAAAAAATATCTTAATATCCTATTAATCCGATAAGAATTATAGTAACATTCTTTCAACCATTGTTATAGGAGGCCTTATTAATGACATTATTATTATTAGAAGCTAACAATCTTGATTTTCCATCAACGAAAGAAGAACTAGaa  <  1:318911/148‑1 (MQ=255)
                                                                                                                                               |                                                                                                                                                
TCTTTTTGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATT‑TAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAGAACTAGAA  >  USA300TCH1516_ALE/195144‑195430

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: ‑