Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	3,598,744	G→T	A305A (GCC→GCA)	livJ ←	branched‑chain amino acid ABC transporter periplasmic binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	3,598,744	0	G	T	100.0%	148.9 / NA	44	A305A (GCC→GCA)	livJ	branched‑chain amino acid ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (22/22);  total (22/22)

ACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCGGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACCAGCAGCCCTTCCGCTGATTCGCCCGCAATGT  >  NC_000913_3_pae_tpiA/3598598‑3598886                                                                                                                                                   |                                                                                                                                               aCGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCgctgc                                                                                                                                              <  1:619417/149‑1 (MQ=255)   gCCTAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGt                                                                                                                                            <  1:268498/149‑1 (MQ=255)             aaGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGGTCGCTTTCAGGTATTTGGCGGTTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCa                                                                                                                                  >  2:498342/1‑149 (MQ=255)                ccTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGCTTGCAGCGCTGCGTAGGTGGTCCAAAc                                                                                                                               >  2:464991/1‑149 (MQ=255)                    tCAGATCGCCTTTCGCAGCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAAt                                                                                                                           <  1:261004/149‑1 (MQ=255)                     cAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATg                                                                                                                          <  1:610756/149‑1 (MQ=255)                         tCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGAAGCGCTGCGTAGGTGGTCCAAACGAATGAGcc                                                                                                                      >  1:432007/1‑149 (MQ=255)                              attatcATGCCAGGTCAGCGGTCTCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTg                                                                                                                 <  2:206352/145‑1 (MQ=255)                                    aTCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCt                                                                                                           >  1:525159/1‑149 (MQ=255)                                           gTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGtttttt                                                                                                    <  1:652180/149‑1 (MQ=255)                                            tCAGCGGTCCCATTACGGTATCCACGGAGTTCGCGTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTc                                                                                                   <  1:667601/149‑1 (MQ=255)                                               gcagtgccATTACGGTATCCACGGAGTTCGCTGTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCt                                                                                                <  2:698186/143‑1 (MQ=255)                                               gCGGTCCCATTACGGTATCCAGGGAGTTCGCATTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTACAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCt                                                                                                <  2:219859/149‑1 (MQ=255)                                                    cccATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGAt                                                                                           <  2:12463/149‑1 (MQ=255)                                                       aTTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAGTGCGCCACTTGGGTCCTGTCTTTTCGCTTTGATcgc                                                                                        >  1:23805/1‑149 (MQ=255)                                                       aTTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATcgc                                                                                        <  1:321263/149‑1 (MQ=255)                                                       aTTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATcgc                                                                                        >  1:121235/1‑149 (MQ=255)                                                           cGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGCTCGTCAGACTGATTCAGGCCCACCTGCCAAGCTTGCCGCGCTCCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGCTCGCGTca                                                                                    >  2:195942/1‑149 (MQ=255)                                                                  cACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCTGCAACAAtag                                                                             >  2:433661/1‑147 (MQ=255)                                                                  cACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATgg                                                                             >  2:304478/1‑149 (MQ=255)                                                                  cACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATgg                                                                             >  1:673040/1‑149 (MQ=255)                                                                             atttGAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCTACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGcc                                                                  <  2:174710/148‑1 (MQ=255)                                                                              tatCAGGAATATGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTACAAACGAATGCGCCACTTGGGTCCTGTTCTTTAGCTTTGAGCGCGTCAACAATGGGTTTGTGCGCCg                                                                 <  2:97766/147‑1 (MQ=255)                                                                                 cAGGTCTTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGaa                                                              <  1:207900/149‑1 (MQ=255)                                                                                  aGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCCACAATGGGTTTGTTCGCCGGAAc                                                             >  2:554113/1‑149 (MQ=255)                                                                                  aGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGaa                                                              <  2:346428/148‑1 (MQ=255)                                                                                  aGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGaa                                                              >  1:346428/1‑148 (MQ=255)                                                                                   ggTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAAcc                                                            >  1:524200/1‑149 (MQ=255)                                                                                           gCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTa                                                    <  1:550203/149‑1 (MQ=255)                                                                                             gATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGt                                                  >  1:75058/1‑149 (MQ=255)                                                                                             gATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGt                                                  <  1:304478/149‑1 (MQ=255)                                                                                                   aGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCg                                            >  1:254074/1‑149 (MQ=255)                                                                                                                gACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATgg                                                                             >  1:256789/1‑103 (MQ=255)                                                                                                                gACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATgg                                                                             <  2:256789/103‑1 (MQ=255)                                                                                                                 aCTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACcagc                              >  1:238317/1‑149 (MQ=255)                                                                                                                 aCTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTATTCGGCTTGGTCACcagc                              >  1:143991/1‑149 (MQ=255)                                                                                                                     aTTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAAcc                                                            >  2:20290/1‑115 (MQ=255)                                                                                                                     aTTCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAAcc                                                            <  1:20290/115‑1 (MQ=255)                                                                                                                      ttCAGGCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCCCTTCGGCCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACCAGCAGccc                         >  1:657249/1‑149 (MQ=255)                                                                                                                           gCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGc                                                                   >  2:136206/1‑102 (MQ=255)                                                                                                                           gCCCGCCTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGc                                                                   <  1:136206/102‑1 (MQ=255)                                                                                                                                ccTGCAAAGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACCAGCAGCCCTTCCGCTGAt               <  2:75058/149‑1 (MQ=255)                                                                                                                                       aGATTGCAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGCTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACCAGCAGCCCCTCCGCTGATTCGCCCg        <  1:464991/149‑1 (MQ=255)                                                                                                                                        gATTGCAGCGCTGCGTAGGGGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACCAGCAGCCCTTCCGCTGATTCGCCCGc       <  1:42277/149‑1 (MQ=255)                                                                                                                                             cAGCGCTGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACCAGCAGCCCTTCCGCTGATTCGCCCGCAATGt  >  2:17696/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                               ACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGATTTCAGCCGGATCGTCAGACTGATTCAGGCCCGCCTGCAAAGATTGCAGCGCGGCGTAGGTGGTCCAAACGAATGCGCCACTTGGGTCCTGTTTTTTCGCTTTGATCGCGTCAACAATGGGTTTGTTCGCCGGAACCTGATCGTAGTTCTTCGGCTTGGTCACCAGCAGCCCTTCCGCTGATTCGCCCGCAATGT  >  NC_000913_3_pae_tpiA/3598598‑3598886

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑