Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,340,892 C→T 13.8% D230N (GAT→AAT)  USA300HOU_2198 ← M23B subfamily peptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,340,8920CT13.8% 61.7 / 4.3 29D230N (GAT→AAT) USA300HOU_2198M23B subfamily peptidase
Reads supporting (aligned to +/- strand):  ref base C (17/8);  new base T (2/2);  total (19/10)
Fisher's exact test for biased strand distribution p-value = 5.92e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.63e-01

CCTTTGATAAGTTCTCGATTATTTATAAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAATATAATTTCCTAAAAACTGTGATTCATTCGTACTTCCAATACTGT  >  CP000730/2340756‑2341032
                                                                                                                                        |                                                                                                                                            
ccTTTGATAAGTTCTCGATTATTTATAAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCa                                                                                                                                          >  2:5564/1‑141 (MQ=255)
ccTTTGATAAGTTCTCGATTATTTATAAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAACTGCCAGATTTCCCAACCTTCCCGATGATATCACCa                                                                                                                                          >  2:191726/1‑141 (MQ=255)
        aaGTTCTCGATTATTTATAAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAAc                                                                                                                                  <  1:107527/141‑1 (MQ=255)
             ctcGATTATTTATAAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACAtttt                                                                                                                             <  2:194159/141‑1 (MQ=255)
                         taAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATTACCATATTTAACATTTTGCCCCTCATTca                                                                                                                 >  1:252473/1‑141 (MQ=255)
                         taAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATTACCATATTTAACATTTTGCCCCTCATTca                                                                                                                 >  1:252571/1‑141 (MQ=255)
                                   ttttAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGGTTGa                                                                                                       >  1:15334/1‑141 (MQ=255)
                                   ttttAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCCCATTCACAATGATTGa                                                                                                       >  1:15289/1‑141 (MQ=255)
                                        aaGATGTACATGATTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATGTTTAACATTTTGCCCCTCATTCACAATGATTGattatt                                                                                                  >  2:177381/1‑141 (MQ=255)
                                               aCATGCTTCAATATTCTTATCATTGATTAATTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGATGTaa                                                                                           >  2:368692/1‑141 (MQ=255)
                                                  tGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTACCATTTTGCCCCTCATTCACAATGATTGAATATTTGTGTAAATg                                                                                        >  2:216560/1‑141 (MQ=255)
                                                     ttaaaTATTCTTATCATTCATTACCTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTATATGAGc                                                                                     <  2:95147/138‑1 (MQ=255)
                                                           atTCTTAGCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGCATTGCTAGTGTTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTaa                                                                               >  2:270011/1‑141 (MQ=255)
                                                              cTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTGCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCt                                                                            >  1:254365/1‑141 (MQ=255)
                                                                         ttACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCAtttt                                                                 <  2:292524/141‑1 (MQ=255)
                                                                             ttGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTAATAAGCTATACTCATTTTCtcc                                                             >  1:179887/1‑139 (MQ=255)
                                                                             ttGAAAAGGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTTTAAATGTGTTTTTATTCTATTCTAATGTTCttt                                                             >  1:354631/1‑139 (MQ=255)
                                                                                  aaTGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATTACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCt                                                        <  2:252473/141‑1 (MQ=255)
                                                                                  aaTGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATTACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCt                                                        <  2:252571/141‑1 (MQ=255)
                                                                                      tataTGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCAc                                                                                                                                            >  1:118225/1‑53 (MQ=255)
                                                                                      tataTGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCAc                                                                                                                                            <  2:118225/53‑1 (MQ=255)
                                                                                          tGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCCCCATATTTAACATTTTGCCCCTCATTCGCAATGATAGAATGTTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCATGCTTAATTCCa                                                >  1:87933/1‑141 (MQ=255)
                                                                                           gAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACaa                                               >  1:370063/1‑141 (MQ=255)
                                                                                            aGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAat                                              >  2:162421/1‑141 (MQ=255)
                                                                                                   gTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAATATAAttt                                       >  1:344775/1‑141 (MQ=255)
                                                                                                    tAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAATATAATTTc                                      <  1:348433/141‑1 (MQ=255)
                                                                                                      gAATTGCCAGAATCCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAATATAATTTCCt                                    <  2:200804/141‑1 (MQ=255)
                                                                                                                  ttCCCAACCTTCCCAATGATATCATCTTATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAACTACAATATAATTTCCTAAAAACTGTGat                        <  2:79072/141‑1 (MQ=255)
                                                                                                                        aCCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAATATAATTTCCTAAAAACTGTGattcatcc                  >  2:261523/1‑139 (MQ=255)
                                                                                                                                        cACCATATTTAACATTTTGCCCCTCATTCACAATGATTGACTATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAATATAATTTCCTAAAAACTGTGATTCATTCGTAGTTCCAATACtgt  <  1:270801/141‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                            
CCTTTGATAAGTTCTCGATTATTTATAAATCGAATTTTTAAAGATGTACATGCTTCAATATTCTTATCATTCATTACTTGAAAATGTATATGAGGTTCAGTAGAATTGCCAGAATTCCCAACCTTCCCAATGATATCACCATATTTAACATTTTGCCCCTCATTCACAATGATTGAATATTGGTGTAAATGAGCTATTAAGCTATACTCATTTTCTGCGTGCTTAATTACAATATAATTTCCTAAAAACTGTGATTCATTCGTACTTCCAATACTGT  >  CP000730/2340756‑2341032

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑