Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 558,918 T→C 28.0% P55P (CCT→CCC cmr → multidrug efflux system protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE558,9180TC28.0% 33.1 / 16.0 25P55P (CCT→CCCcmrmultidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base T (7/11);  new base C (4/3);  total (11/14)
Fisher's exact test for biased strand distribution p-value = 6.56e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.69e-01

ATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTACAATGGCTGCTGGGGCCGCT  >  minE/558854‑558977
                                                                |                                                           
atatGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTc                                                        <  1:116687/70‑1 (MQ=255)
atatGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTc                                                        <  1:134929/70‑1 (MQ=255)
 tatGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCg                                                       <  1:576695/70‑1 (MQ=255)
   tGATTCAACCCGGTATGTTGTCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCCACTTCGATg                                                    <  1:57165/71‑1 (MQ=255)
     aTTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGAc                                                  >  1:2066880/1‑71 (MQ=255)
               gTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTg                                        >  1:349483/1‑71 (MQ=255)
                       gCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGgcgggcgg                                >  1:1216877/1‑71 (MQ=255)
                                 aaCAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGa                                                   >  1:1941440/1‑42 (MQ=255)
                                 aaCAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTa                      <  1:674788/71‑1 (MQ=255)
                                  aCAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTa                      >  1:1545093/1‑70 (MQ=255)
                                    aaTATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTACaa                   <  1:1706724/71‑1 (MQ=255)
                                       atCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTAc                     <  1:305816/66‑1 (MQ=255)
                                          aGGCGGGCATTGATTGGGTTCCCACTTCGATGACCGCGTATCTGGCGGGCTGGATGTTTTTAc                     <  1:381699/63‑1 (MQ=255)
                                            gCGGGCATTGATTGGGTTCCCACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTACaa                   >  1:380302/1‑63 (MQ=255)
                                                 cATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGttttt                       <  1:495198/54‑1 (MQ=255)
                                                   ttgattgGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGttttt                       <  1:901820/52‑1 (MQ=255)
                                                   ttgattgGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGtttt                        <  1:1361961/51‑1 (MQ=255)
                                                     gattgGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTACAATGGCTGCTGGGGCCGCt  >  1:707504/1‑71 (MQ=255)
                                                     gattgGGTTCCCACTTCGATGACCGCGTATCTggcg                                     >  1:170009/1‑36 (MQ=255)
                                                     gattgGGTTCCCACTTCGATGACCGCGTATCTggcg                                     >  1:396799/1‑36 (MQ=255)
                                                     gattgGGTTCCCACTTCGATGACCGCGTATCTggcg                                     >  1:1770620/1‑36 (MQ=255)
                                                           gTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTACAATGgc               <  1:1442965/52‑1 (MQ=255)
                                                           gTTCCCACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTACAATg                 <  1:1403668/50‑1 (MQ=255)
                                                            ttCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTAc                     <  1:2080588/45‑1 (MQ=255)
                                                              ccTACTTCGATGACCGCGTATCTGGCGAGCGGGATGTTTTTACaa                   >  1:202320/1‑45 (MQ=255)
                                                                tACTTCGATGACCGCGTATCTGGCGGGCGGGATGtttt                        >  1:2049659/1‑38 (MQ=255)
                                                                tACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTAc                     <  1:934381/41‑1 (MQ=255)
                                                                |                                                           
ATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGATGACCGCGTATCTGGCGGGCGGGATGTTTTTACAATGGCTGCTGGGGCCGCT  >  minE/558854‑558977

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: