Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,768,131 A→T pseudogene (911/945 nt) rhsJ → Rhs‑family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,768,1310AT100.0% 168.0 / NA 48pseudogene (911/945 nt)rhsJRhs‑family protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (23/25);  total (23/25)

TAATGGTAAGTTAAAAATGGATACAGTGCTAACAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCAAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGG  >  NC_000913/3767991‑3768271
                                                                                                                                            |                                                                                                                                            
tAATGGTAAGTTAAAAATGGATACAGTGCTAACAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGc                                                                                                                                      >  6:80371/1‑149 (MQ=255)
   tGGTAAGTTAAAAATGGATACAGTGCTAACAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGc                                                                                                                                      >  3:121731/1‑146 (MQ=255)
              aaaTGGATACAGTGCTAACAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGt                                                                                                                        <  7:60522/149‑1 (MQ=255)
                 tGGATACAGTGCTAACAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGa                                                                                                                      >  3:48088/1‑148 (MQ=255)
                          tGCTAACAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAg                                                                                                            >  4:71687/1‑149 (MQ=255)
                               aCAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGt                                                                                                       <  8:38682/149‑1 (MQ=255)
                                      cAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAgg                                                                                                           >  8:53337/1‑138 (MQ=255)
                                      cAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAgg                                                                                                           <  7:53337/138‑1 (MQ=255)
                                      cAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTa                                                                                                >  5:4810/1‑149 (MQ=255)
                                      cAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTa                                                                                                >  2:86469/1‑149 (MQ=255)
                                       aaCGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTAt                                                                                               <  7:37615/149‑1 (MQ=255)
                                              cTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCa                                                                                        >  6:100092/1‑149 (MQ=255)
                                                 aaTTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCAt                                                                                       <  6:4810/147‑1 (MQ=255)
                                                      aaaTAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGt                                                                                 >  2:127519/1‑148 (MQ=255)
                                                      aaaTAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGt                                                                                 >  8:132091/1‑148 (MQ=255)
                                                                 tAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTAtttttt                                                                      >  1:164703/1‑148 (MQ=255)
                                                                   aTGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTAt                                                                   <  1:127519/149‑1 (MQ=255)
                                                                    tGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTAtt                                                                  <  4:121731/149‑1 (MQ=255)
                                                                          taACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTtctc                                                              <  5:100092/147‑1 (MQ=255)
                                                                                  aaaGACCTTGGTAATTGGATAACATATGGGCCATCTGGTCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTTATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGt                                                    <  3:21444/149‑1 (MQ=255)
                                                                                           ggTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTAttt                                                      <  8:76219/138‑1 (MQ=255)
                                                                                           ggTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTAttt                                                      >  7:76219/1‑138 (MQ=255)
                                                                                           ggTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGc                                             <  7:130420/147‑1 (MQ=255)
                                                                                           ggTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCa                                            <  2:164703/148‑1 (MQ=255)
                                                                                            gTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTGGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCAt                                           <  5:33912/148‑1 (MQ=255)
                                                                                                   gATAACATATGGGCCATCTGTGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGa                                   <  2:146512/149‑1 (MQ=255)
                                                                                                   gATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGa                                   >  1:118971/1‑149 (MQ=255)
                                                                                                   gATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGa                                   >  5:47542/1‑149 (MQ=255)
                                                                                                        cATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATg                                          >  8:78038/1‑137 (MQ=255)
                                                                                                        cATATGGGCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATg                                          <  7:78038/137‑1 (MQ=255)
                                                                                                             gggCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGaaa                            <  2:157297/146‑1 (MQ=255)
                                                                                                             gggCCATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGaaa                            >  1:157297/1‑146 (MQ=255)
                                                                                                                ccATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATaaaa                      <  6:47542/149‑1 (MQ=255)
                                                                                                                ccATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATaaaa                      <  7:132091/149‑1 (MQ=255)
                                                                                                                ccATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATaaaa                      >  3:17530/1‑149 (MQ=255)
                                                                                                                ccATCTGGGCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATaaaa                      <  4:48088/149‑1 (MQ=255)
                                                                                                                ccATCTGGGCAACGCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATaaaa                      <  5:80371/149‑1 (MQ=255)
                                                                                                                       ggCACCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATaaaacaaaac                >  2:4316/1‑148 (MQ=255)
                                                                                                                          aCCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCttt                                                           <  1:96236/102‑1 (MQ=255)
                                                                                                                          aCCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCttt                                                           >  2:96236/1‑102 (MQ=255)
                                                                                                                          aCCCCATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGaaa            <  1:86469/149‑1 (MQ=255)
                                                                                                                            cccATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAg           >  5:50776/1‑148 (MQ=255)
                                                                                                                            cccATTTCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAg           >  8:81595/1‑148 (MQ=255)
                                                                                                                                tttCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTatta      >  7:29911/1‑147 (MQ=255)
                                                                                                                                 ttCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAATATAGGTTGTAGATGTATGAAAGCATGCTTGTTTCTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTg                                       <  1:156923/115‑1 (MQ=255)
                                                                                                                                 ttCTAATATGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTAACTATTTTTTTATTTCTCATTTATATGTCAATAGCATGGTg                                       >  2:156923/1‑115 (MQ=255)
                                                                                                                                      atatGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATggg  <  3:71687/147‑1 (MQ=255)
                                                                                                                                      atatGCTAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATggg  <  4:17530/147‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                            
TAATGGTAAGTTAAAAATGGATACAGTGCTAACAGCACCAACGAACCTTAATTCAAATAAGGATCTAATGGCTATAACAACAAAAGACCTTGGTAATTGGATAACATATGGGCCATCTGGGCACCCCATTTCTAATATGCAAGGTACGCCAGAAAAACCCAGTGATATAAGATAGGTTGTAGATGTATGAAAGCATGCTTGTTACTATTTTTTTATTTCTCTTTTATTTGTCAATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGG  >  NC_000913/3767991‑3768271

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: