Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	529,029	C→T	pseudogene (390/491 nt)	ybbD →	putative uncharacterized protein YbbD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	529,029	0	C	T	100.0%	157.9 / NA	49	pseudogene (390/491 nt)	ybbD	putative uncharacterized protein YbbD
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (27/22);  total (27/22)

AACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCG  >  NC_000913/528899‑529160                                                                                                                                   |                                                                                                                                    aaCAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATg                                                                                                                            >  1:958633/1‑140 (MQ=255)    aaaTGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGgtg                                                                                                                         <  1:976626/140‑1 (MQ=255)            atgGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCtt                                                                                                                 >  1:565397/1‑140 (MQ=255)                  gTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCtttttttt                                                                                                           >  1:68153/1‑140 (MQ=255)                    aGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCtttt                                                                                                               >  2:188041/1‑134 (MQ=255)                    aGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCtttt                                                                                                               <  1:188041/134‑1 (MQ=255)                        ttAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGt                                                                                                     <  1:320016/140‑1 (MQ=255)                         tAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTg                                                                                                    >  1:335700/1‑140 (MQ=255)                          aaGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGa                                                                                                   >  2:549610/1‑140 (MQ=255)                                aCATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTaa                                                                                             >  1:1037414/1‑140 (MQ=255)                                 cATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAAt                                                                                            >  1:557488/1‑140 (MQ=255)                                       cAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACg                                                                                      >  2:424537/1‑140 (MQ=255)                                          tGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCat                                                                                   >  1:147272/1‑140 (MQ=255)                                          tGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCat                                                                                   >  1:992265/1‑140 (MQ=255)                                          tGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGGTGGTGAAATTAATGTTACGCat                                                                                   >  1:738078/1‑140 (MQ=255)                                           gAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCatt                                                                                  >  1:956694/1‑140 (MQ=255)                                           gAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCatt                                                                                  >  2:592643/1‑140 (MQ=255)                                                   gggAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTtata                                                                          <  1:584893/140‑1 (MQ=255)                                                    ggAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATaa                                                                         >  2:701955/1‑140 (MQ=255)                                                    ggAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATaa                                                                         >  2:369312/1‑140 (MQ=255)                                                           gTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAatat                                                                  <  2:738078/140‑1 (MQ=255)                                                              gCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTgg                                                               >  1:906500/1‑140 (MQ=255)                                                                     tCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGa                                                        <  1:710278/140‑1 (MQ=255)                                                                     tCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGa                                                        <  2:547647/140‑1 (MQ=255)                                                                           cAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCt                                                  <  1:609047/140‑1 (MQ=255)                                                                           cAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCt                                                  <  1:914969/140‑1 (MQ=255)                                                                           cAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCt                                                  <  2:152298/140‑1 (MQ=255)                                                                           cAAAGAATGATCCAGAATCAAAAAAAGTGTTGTGTAAATATTGTAAGAAACCCGGGTCAGGGGATGGTGTAAAACCTTTTTTTGTTTGTGGAATTAATGTTACCCATTATTTTATAACAAATATTGGAGCTGGATTGCCt                                                  <  2:906500/140‑1 (MQ=255)                                                                                aaTGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCt                                                  <  2:1013261/135‑1 (MQ=255)                                                                                aaTGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCt                                                  >  1:1013261/1‑135 (MQ=255)                                                                                aaTGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGc                                             >  2:870962/1‑140 (MQ=255)                                                                                aaTGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGc                                             >  2:699508/1‑140 (MQ=255)                                                                                    aTCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTtgt                                         <  2:147272/140‑1 (MQ=255)                                                                                      ccAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGc                                       <  1:346508/140‑1 (MQ=255)                                                                                       cAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGa                                                >  1:379510/1‑130 (MQ=255)                                                                                       cAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGa                                                <  2:379510/130‑1 (MQ=255)                                                                                             cAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTaa                                <  2:540438/140‑1 (MQ=255)                                                                                              aaaaaaaGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAAt                               >  2:65229/1‑140 (MQ=255)                                                                                                  aaaGTGTGGTGTAAATATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCt                           <  2:335700/140‑1 (MQ=255)                                                                                                              aaaTATGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGt               <  1:870962/140‑1 (MQ=255)                                                                                                                atatGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCt             >  1:196772/1‑140 (MQ=255)                                                                                                                atatGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCt             <  2:196772/140‑1 (MQ=255)                                                                                                                   tGGTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATc          <  2:743590/140‑1 (MQ=255)                                                                                                                    ggTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATcc         >  2:346190/1‑140 (MQ=255)                                                                                                                     gTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTc              >  2:583773/1‑134 (MQ=255)                                                                                                                     gTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTc              <  1:583773/134‑1 (MQ=255)                                                                                                                     gTAAGATACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATccc        >  1:213046/1‑140 (MQ=255)                                                                                                                           tACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCg  <  2:253628/140‑1 (MQ=255)                                                                                                                           tACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCg  >  1:844020/1‑140 (MQ=255)                                                                                                                           tACCAGGGTAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCg  <  1:342233/140‑1 (MQ=255)                                                                                                                                   |                                                                                                                                    AACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCG  >  NC_000913/528899‑529160

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑