Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,507,390	T→C	pseudogene (194/255 nt)	insO →	KpLE2 phage‑like element; IS911B regulator fragment

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,507,390	0	T	C	100.0%	70.1 / NA	21	pseudogene (194/255 nt)	insO	KpLE2 phage‑like element; IS911B regulator fragment
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/5);  total (16/5)

AGATGGGTCAAACAACTGCGTGATGAGCGTCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAATCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAATATTAAAAAGGCTACTGTAGATT  >  NC_000913/4507317‑4507466                                                                          |                                                                             aGATGGGTCAAACAACTGCGTGATGAGCGTCAGAGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATa                                                                       <  2:933375/81‑1 (MQ=255)     gggTCAAACAACTGCGTGATGAGCGTCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGt                                                                    >  1:933410/1‑80 (MQ=255)       gTCAAACAACTGCGTGATGAGCGTCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAg                                                                 >  1:933411/1‑81 (MQ=255)          aaaCAACTGCGTGATGAGCGTCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCt                                                               <  1:933376/80‑1 (MQ=255)                cTGCGTGATGAGCGTCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGaa                                                         >  1:933391/1‑80 (MQ=255)                   cGTGATGAGCGTCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGaaaaa                                                      <  1:933377/80‑1 (MQ=255)                              tCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGAt                                          >  2:933413/1‑81 (MQ=255)                               cAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGAtt                                         >  1:933416/1‑81 (MQ=255)                                 gggCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTg                                        >  1:933418/1‑80 (MQ=255)                                     aaaaCACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATg                                   >  2:933412/1‑81 (MQ=255)                                       aaCACCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATg                                   >  2:933407/1‑79 (MQ=255)                                        acacCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATg                                   >  2:933408/1‑78 (MQ=255)                                        acacCAAAAGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATg                                   >  1:933415/1‑78 (MQ=255)                                             aaaaGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGa                           <  2:933378/81‑1 (MQ=255)                                              aaaGCCTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGaa                          <  2:933379/81‑1 (MQ=255)                                                  ccTCTCCGATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAatat                      >  1:933419/1‑81 (MQ=255)                                                         gATAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAATATTAAAAAg               >  2:933414/1‑81 (MQ=255)                                                          aTAACACCAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAATATTAAAAAgg              >  1:933421/1‑81 (MQ=255)                                                                 cAGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAATATTAAAAAGGCTACTg        >  1:933426/1‑80 (MQ=255)                                                                  aGAACAAACCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAATATTAAAAAGGCTACTg        >  1:933404/1‑79 (MQ=255)                                                                       aaaCCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAATATTAAAAAGGCTACTGTAGAtt  >  1:933424/1‑80 (MQ=255)                                                                          |                                                                             AGATGGGTCAAACAACTGCGTGATGAGCGTCAGGGCAAAACACCAAAAGCCTCTCCGATAACACCAGAACAAATCGAAATACGTAAGCTGAGGAAAAAGCTACAACGGATTGAAATGGAGAATGAAATATTAAAAAGGCTACTGTAGATT  >  NC_000913/4507317‑4507466

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑