Predicted mutation
evidence seq id position mutation freq annotation gene description
RA W3110S.gb 3,977,925 T→C 7.5% L693L (CTA→CTG mdtF ← multidrug transporter, RpoS‑dependent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb3,977,9250TC 7.5% 140.8 / 2.8 53L693L (CTA→CTGmdtFmultidrug transporter, RpoS‑dependent
Reads supporting (aligned to +/- strand):  ref base T (29/20);  new base C (2/2);  total (31/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01

CGTACCCCGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGACGCGGTACCCAGTTCAG  >  W3110S.gb/3977860‑3977995
                                                                 |                                                                      
cGTACCCCGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGttt                                                                   <  1:2873516/71‑1 (MQ=255)
 gTACCCCGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGtttt                                                                  >  1:1305358/1‑71 (MQ=255)
  tACCCCGGTGCCCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGttttt                                                                 >  1:633177/1‑71 (MQ=255)
  tACCCCGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGttttt                                                                 >  1:2623928/1‑71 (MQ=255)
    ccccGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAg                                                                      <  1:3143078/64‑1 (MQ=255)
    ccccGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCg                                                               <  1:3291391/71‑1 (MQ=255)
    ccccGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCg                                                               >  1:3467057/1‑71 (MQ=255)
    ccccGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCg                                                               <  1:1706895/71‑1 (MQ=255)
    ccccGATGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTCAGCTTTTc                                                                <  1:2790941/70‑1 (MQ=255)
    ccccGATGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTCAGCTTTTc                                                                <  1:602266/70‑1 (MQ=255)
     ccccGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAg                                                                      <  1:669582/63‑1 (MQ=255)
         gTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGccc                                                          >  1:71195/1‑71 (MQ=255)
         gTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGccc                                                          >  1:1859657/1‑71 (MQ=255)
          tGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGcccc                                                         <  1:3858687/71‑1 (MQ=255)
           gACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGccg                                                          >  1:2105824/1‑68 (MQ=255)
           gACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGccc                                                          >  1:239427/1‑69 (MQ=255)
            aCCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAg                                                       >  1:1263247/1‑71 (MQ=255)
                 aTTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGtttt                                                                  <  1:2717809/55‑1 (MQ=255)
                     ggTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGt                                               <  1:881472/70‑1 (MQ=255)
                       tGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAgg                                                      >  1:3463741/1‑61 (MQ=255)
                        gATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTc                                           >  1:1252826/1‑71 (MQ=255)
                        gATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTCAGCTTTTCGTGCCCCAGATTGCCGTTGTc                                           >  1:1684758/1‑71 (MQ=255)
                        gATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTCAGCTTTTCGTGCCCCAGATTGCCGTTGTc                                           >  1:3803459/1‑71 (MQ=255)
                         aTTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTc                                           <  1:1497718/70‑1 (MQ=255)
                           tGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTc                                                                >  1:1690597/1‑47 (MQ=255)
                           tGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTc                                                                >  1:167273/1‑47 (MQ=255)
                           tGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCcag                                        >  1:2002897/1‑71 (MQ=255)
                           tGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCcag                                        >  1:421826/1‑71 (MQ=255)
                           tGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCca                                         >  1:2209766/1‑70 (MQ=255)
                            gcgcTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCg                                                <  1:463355/62‑1 (MQ=255)
                              gcTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGtt                                              >  1:1064191/1‑62 (MQ=255)
                                   cAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCa                                <  1:3030325/71‑1 (MQ=255)
                                      tGATAACAGCTCGTTTCGCGCCTTGGTTAGttttt                                                                 <  1:520778/35‑1 (MQ=255)
                                       gATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTa                                                   >  1:964387/1‑48 (MQ=255)
                                       gATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCcagca                                      >  1:2187229/1‑61 (MQ=255)
                                       gATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCatat                             >  1:564360/1‑70 (MQ=255)
                                       gATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCatat                             >  1:3507944/1‑70 (MQ=255)
                                        aTAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATc                            >  1:212551/1‑70 (MQ=255)
                                        aTAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATc                            >  1:1064495/1‑70 (MQ=255)
                                         tAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCa                                <  1:3316151/65‑1 (MQ=255)
                                         tAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCaa                          <  1:1776054/71‑1 (MQ=255)
                                         tAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCaa                          <  1:1136006/71‑1 (MQ=255)
                                          aaCAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCa                                >  1:3493192/1‑64 (MQ=255)
                                          aaCAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCa                                >  1:2381114/1‑64 (MQ=255)
                                           aCAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCat                               <  1:1179016/64‑1 (MQ=255)
                                             aGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGccc                                                          <  1:2451898/35‑1 (MQ=255)
                                                   tttCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGAcgc                <  1:310806/71‑1 (MQ=255)
                                                   tttCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGAcgc                <  1:3000867/71‑1 (MQ=255)
                                                     tCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGACGCgg              >  1:3763907/1‑71 (MQ=255)
                                                         gcCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCcagc                                       >  1:2747453/1‑42 (MQ=255)
                                                         gcCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCaaaa                        >  1:323382/1‑57 (MQ=255)
                                                             gggTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGACGCGGTACCCAGt      >  1:2200884/1‑71 (MQ=255)
                                                               gTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCaa                          <  1:128896/49‑1 (MQ=255)
                                                                 tAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGACGCGGTACCCAGtt     >  1:225434/1‑68 (MQ=255)
                                                                 tAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGACGCGGTACCCAGTTCAg  >  1:1836055/1‑71 (MQ=255)
                                                                 |                                                                      
CGTACCCCGGTGACCTGATTCGGTGATTGCGCTGCCAGTGATAACAGCTCGTTTCGCGCCTGGGTTAGTTTTTCGTGCCCCAGGTTACCGTTGTCCAGCAGTTCCATATCAAAACCTGACGCGGTACCCAGTTCAG  >  W3110S.gb/3977860‑3977995

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: