Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,951,452	C→T	pseudogene (893/984 nt)	ilvG →	pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,951,452	0	C	T	100.0%	123.4 / NA	33	pseudogene (893/984 nt)	ilvG	pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (11/22);  total (11/22)

GGATGCACGGCACCAAAGCGGCAAACTTCGCGGTGCAGGAGTGTGACCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTT  >  NC_000913/3951305‑3951590                                                                                                                                                    |                                                                                                                                           ggATGCACGGCACCAAAGCGGCAAACTTCGCGGTGCAGGAGTGTGACCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGa                                                                                                                                         <  2:573025/151‑1 (MQ=255)   aTGCACGGCACCAAAGCGGCAAACTTCGCGGTGCAGGAGTGTGACCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGaa                                                                                                                                        >  2:350167/1‑150 (MQ=255)                     gCAAACTTCGCGGTGCAGGAGTGTGACCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAgg                                                                                                                     >  1:134621/1‑151 (MQ=255)                                ggTGCAGGAGTGTGACCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGc                                                                                                           >  1:463575/1‑150 (MQ=255)                                         gtgtGACCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGt                                                                                                 <  1:231186/151‑1 (MQ=255)                                              aCCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGAttt                                                                                            <  1:96138/151‑1 (MQ=255)                                                     gATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGc                                                                                      <  1:436585/150‑1 (MQ=255)                                                        cGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTg                                                                                  <  1:290653/151‑1 (MQ=255)                                                            gTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTAc                                                                              <  1:350164/151‑1 (MQ=255)                                                              gggCGCACGGTGTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGt                                                                                 <  1:204448/146‑1 (MQ=255)                                                                  gcACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCAt                                                                        <  1:520811/151‑1 (MQ=255)                                                                   cACGTTTTGATGACCGGGTGACCGGCAAACTGAACCCCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCAtt                                                                       <  1:356284/151‑1 (MQ=255)                                                                          tgatgaCCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTAcagca                                                                 <  2:566561/150‑1 (MQ=255)                                                                            atgaCCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGcc                                                              >  1:108977/1‑151 (MQ=255)                                                                                 cGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTaa                                                         <  2:27218/151‑1 (MQ=255)                                                                                  gggTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTaaa                                                        <  2:650668/151‑1 (MQ=255)                                                                                      gACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCa                                                     <  2:171982/150‑1 (MQ=255)                                                                                                  gAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGgcag                                          <  2:163914/149‑1 (MQ=255)                                                                                                   aaCACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGgcagca                                        >  1:446044/1‑150 (MQ=255)                                                                                                            gcgcCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTgcgcg                              <  1:628857/151‑1 (MQ=255)                                                                                                             cgcCACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTgcgcgc                             <  1:104647/151‑1 (MQ=255)                                                                                                               ccACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTgcgcgc                             >  1:148189/1‑149 (MQ=255)                                                                                                               ccACACGCCAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAg                           <  2:228388/151‑1 (MQ=255)                                                                                                                      ccAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGtg                    >  2:315651/1‑151 (MQ=255)                                                                                                                       cAGTGTTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGtga                   <  1:513238/151‑1 (MQ=255)                                                                                                                         gtgtTATCCATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGtgatg                 <  2:167697/151‑1 (MQ=255)                                                                                                                                ccATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTc          >  1:523790/1‑151 (MQ=255)                                                                                                                                 cATATGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTcc         >  2:83903/1‑151 (MQ=255)                                                                                                                                  atatGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCt        >  1:592520/1‑151 (MQ=255)                                                                                                                                  atatGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCt        <  1:257178/151‑1 (MQ=255)                                                                                                                                    atGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTgg      <  2:463579/151‑1 (MQ=255)                                                                                                                                    atGGATATCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTgg      <  1:122838/151‑1 (MQ=255)                                                                                                                                        atatCGACCCGGTAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGtt  >  2:120326/1‑151 (MQ=255)                                                                                                                                                    |                                                                                                                                           GGATGCACGGCACCAAAGCGGCAAACTTCGCGGTGCAGGAGTGTGACCTGCTGATCGCCGTGGGCGCACGTTTTGATGACCGGGTGACCGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTT  >  NC_000913/3951305‑3951590

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑