Predicted mutation
evidence seq id position mutation freq annotation gene description
RA W3110S.gb 3,824,368 G→A 100% pseudogene (501/687 nt) rph → ECK3633:JW3618:b3643; ribonuclease PH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb3,824,3680GA100.0% 170.8 / NA 58pseudogene (501/687 nt)rphECK3633:JW3618:b3643; ribonuclease PH
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (24/34);  total (24/34)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGGAATACGTTGAAGACTCTGCCGCAGAGACCGACATGAACG  >  W3110S.gb/3824303‑3824432
                                                                 |                                                                
gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg                                                             <  1:933410/71‑1 (MQ=255)
gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg                                                             <  1:3942924/71‑1 (MQ=255)
 aaaaCGGCAAGCTGAAACCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg                                                             >  1:1365612/1‑70 (MQ=255)
 aaaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggt                                                            >  1:474976/1‑70 (MQ=255)
 aaaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggt                                                            <  1:2504843/71‑2 (MQ=255)
  aaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg                                                           <  1:1288315/71‑3 (MQ=255)
  aaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg                                                           <  1:2599340/71‑3 (MQ=255)
  aaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg                                                           <  1:1064469/71‑3 (MQ=255)
  aaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggt                                                            >  1:1808823/1‑69 (MQ=255)
    aCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg                                                           >  1:2712488/1‑67 (MQ=255)
     cGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAg                                                        >  1:2026859/1‑71 (MQ=255)
        cAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAAc                                                               <  1:3574529/61‑1 (MQ=255)
        cAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGcaa                                                     <  1:4112113/71‑3 (MQ=255)
        cAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGcaa                                                     <  1:2028127/71‑3 (MQ=255)
         aaGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGcaat                                                    <  1:3196460/71‑4 (MQ=255)
         aaGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGcaat                                                    <  1:659530/71‑4 (MQ=255)
          aGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg                                                             >  1:2208659/1‑61 (MQ=255)
           gCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGc                                                       <  1:449701/66‑1 (MQ=255)
            cTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTaaa                                                                >  1:2522556/1‑56 (MQ=255)
            cTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGaa                                                         >  1:433901/1‑63 (MQ=255)
             tGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg                                                           <  1:1763078/60‑3 (MQ=255)
              gAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGaa                                                         >  1:1136218/1‑61 (MQ=255)
               aaaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGa                                                          >  1:481760/1‑59 (MQ=255)
               aaaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGa                                              >  1:4048416/1‑71 (MQ=255)
                 aaccaaccCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATc                                            <  1:3455567/71‑1 (MQ=255)
                 aaccaaccCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATc                                            >  1:2731795/1‑71 (MQ=255)
                      acccGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGaa                                       <  1:4282917/69‑1 (MQ=255)
                           aTGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGt                                  <  1:2686394/71‑1 (MQ=255)
                           aTGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGt                                  <  1:533310/71‑1 (MQ=255)
                           aTGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGt                                  >  1:638709/1‑71 (MQ=255)
                            tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTaaa                                                                <  1:1374802/40‑1 (MQ=38)
                            tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGtt                                 >  1:1681664/1‑71 (MQ=255)
                             gAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGcaa                                                     >  1:2560738/1‑48 (MQ=255)
                             gAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGtt                                 >  1:3498909/1‑70 (MQ=255)
                              aaaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTg                                <  1:1424115/70‑1 (MQ=255)
                              aaaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTg                                <  1:4207399/70‑1 (MQ=255)
                              aaaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTg                                <  1:1314323/70‑1 (MQ=255)
                               aaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGa                                                          >  1:664533/1‑43 (MQ=37)
                               aaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGcaa                                                     <  1:953467/48‑3 (MQ=255)
                               aaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca                                                      <  1:4282800/47‑2 (MQ=255)
                               aaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGaa                              <  1:1371305/71‑1 (MQ=255)
                                aGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGaa                                       >  1:2553850/1‑61 (MQ=255)
                                 gggATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg                                               <  1:678994/52‑1 (MQ=255)
                                 gggATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg                                               <  1:3506770/52‑1 (MQ=255)
                                     tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg                                               <  1:4177797/48‑1 (MQ=25)
                                       gTAGCCGCAGTTTCTGTAGGTATTGTAAACGGTGAAGcaa                                                     <  1:3338862/40‑3 (MQ=255)
                                         aGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTg                                >  1:4168057/1‑59 (MQ=255)
                                             gCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCa                  >  1:971484/1‑69 (MQ=255)
                                                 tttCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg                                         <  1:2918850/42‑1 (MQ=19)
                                                  ttCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGa                            >  1:3736963/1‑54 (MQ=255)
                                                  ttCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGAcc            >  1:4262521/1‑70 (MQ=255)
                                                   tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCa                  <  1:1795653/63‑1 (MQ=255)
                                                      gTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGtt                                 <  1:756384/45‑1 (MQ=25)
                                                       tCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGAc         <  1:785282/68‑1 (MQ=255)
                                                         ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGaa    >  1:3947333/4‑71 (MQ=255)
                                                         ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGa     <  1:650446/67‑1 (MQ=255)
                                                           taTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGAct                          >  1:919791/2‑47 (MQ=25)
                                                           taTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACg  <  1:2195473/70‑1 (MQ=255)
                                                            aTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActcag                       >  1:4026875/1‑47 (MQ=25)
                                                             ttGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTg                                <  1:1549460/39‑1 (MQ=21)
                                                                 |                                                                
GAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGGAATACGTTGAAGACTCTGCCGCAGAGACCGACATGAACG  >  W3110S.gb/3824303‑3824432

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: