Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,610,233 A→G 11.5% S214P (TCT→CCT)  srrB ← Sensor protein SrrB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,610,2330AG11.5% 77.8 / 4.6 35S214P (TCT→CCT) srrBSensor protein SrrB
Reads supporting (aligned to +/- strand):  ref base A (13/18);  new base G (2/2);  total (15/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.10e-01

GCTGTCTCTAATATTTTTAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATAATCGTAATAGCATTATTTGT  >  USA300TCH1516_ALE/1610093‑1610368
                                                                                                                                            |                                                                                                                                       
tcTGTCTCTAATATTTTTAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGa                                                                                                                                         <  1:15363/140‑1 (MQ=255)
 cTGTCTCTAATATTTTTAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGAt                                                                                                                                        >  2:248594/1‑141 (MQ=255)
  tGTCTCTAATATTTTTAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAAATa                                                                                                                                       >  1:195051/1‑141 (MQ=255)
      tctAATATTTTTAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGGCCAAATTCATCTTTCGTTGTGACAGACGGTTTATAAGAGTAATCCCCTTCAGATACACg                                                                                                                                   <  1:371188/141‑1 (MQ=255)
                 tAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGGTACACGTGTAGCTTGGt                                                                                                                        >  2:263813/1‑141 (MQ=255)
                 tAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGGTACACGTGTAGCTTGGt                                                                                                                        >  1:79376/1‑141 (MQ=255)
                     tgtgGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTctct                                                                                                                    <  2:379049/141‑1 (MQ=255)
                     tgtgGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTctct                                                                                                                    <  2:7158/141‑1 (MQ=255)
                         gATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTaaa                                                                                                                <  2:38681/141‑1 (MQ=255)
                                cGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTa                                                                                                         >  1:111329/1‑141 (MQ=255)
                                        tGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGtttt                                                                                                 >  1:250931/1‑141 (MQ=255)
                                         gCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTg                                                                                                >  2:118725/1‑141 (MQ=255)
                                         gCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGAGACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTg                                                                                                <  2:257233/141‑1 (MQ=255)
                                           tctTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTa                                                                                              <  2:312517/141‑1 (MQ=255)
                                              tCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAAtt                                                                                           <  1:182615/141‑1 (MQ=255)
                                                gATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCt                                                                                         <  1:308630/141‑1 (MQ=255)
                                                      tGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGa                                                                                   <  1:17515/141‑1 (MQ=255)
                                                      tGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATGTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGa                                                                                   <  2:175988/141‑1 (MQ=255)
                                                               cTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGaaaaa                                                                          >  1:350377/1‑141 (MQ=255)
                                                                     aaaTGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGGTACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCaaa                                                                    <  1:263813/141‑1 (MQ=255)
                                                                     aaaTGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGGTACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTAAACAAAAAAAAAAACGCaaa                                                                    <  2:79376/141‑1 (MQ=255)
                                                                              cGATAATTGACCAATTTCATCTTTCGTTGGGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACtgttgt                                                           <  2:299223/141‑1 (MQ=255)
                                                                                aTAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATACGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTaa                                                         >  1:271479/1‑141 (MQ=255)
                                                                                     tGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGtt                                                    >  1:297648/1‑141 (MQ=255)
                                                                                             ttCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAAt                                            <  1:319426/141‑1 (MQ=255)
                                                                                                aTCTTTGGTTGTGAGAGAAGGTTTATAAGAGTAATCCCCGTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAAc                                         <  2:195051/141‑1 (MQ=255)
                                                                                                  cTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAg                                       >  1:228055/1‑141 (MQ=255)
                                                                                                                 aaGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGa                        <  1:35391/141‑1 (MQ=255)
                                                                                                                            gagTAATCCCCTTCAGATACACGTTTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATAATCGTAATa             <  2:46111/141‑1 (MQ=255)
                                                                                                                              ttAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGCCTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATAATCGTAATAGc           <  2:64075/140‑1 (MQ=255)
                                                                                                                              gTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATAATCGTAATAGc           <  1:118725/141‑1 (MQ=255)
                                                                                                                                   ccccTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATAATCGTAATAGCattat      >  1:144795/1‑141 (MQ=255)
                                                                                                                                     ccTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGCGGATAATCGTAATAGCATTAttt    >  2:96741/1‑141 (MQ=255)
                                                                                                                                     ccTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGACGTAATTATGGTGATAATCGTAATAGCATTAttt    >  2:98268/1‑141 (MQ=255)
                                                                                                                                      cTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATACTCGTAATACCATGCTTTg   >  2:383394/1‑141 (MQ=255)
                                                                                                                                       ttCAGATACACGTTTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATAATCGTAATAGCATTATTTGt  <  2:292912/141‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                       
GCTGTCTCTAATATTTTTAGATGTGGATAATGCGTCGACATGCTCTTCGATTTCTGTACTCATCTGATTAAATGCCTGCGATAATTGACCAATTTCATCTTTCGTTGTGACAGAAGGTTTATAAGAGTAATCCCCTTCAGATACACGTGTAGCTTGGTCTCTTAAACGTCTTAAAGGTTTTGTAATTCTTGACGATAAGAAAAACGCAAAGACTGTTGTAATTGTTAAGAAAATAACAGCCGTAATTATGGTGATAATCGTAATAGCATTATTTGT  >  USA300TCH1516_ALE/1610093‑1610368

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: ‑