Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,068,541	T→C	T90A (ACA→GCA)	argO ←	arginine transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,068,541	0	T	C	100.0%	118.7 / NA	32	T90A (ACA→GCA)	argO	arginine transporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (19/13);  total (19/13)

ACAAAAGTATCCAGGTAAACATGCGGATTCAGCCAGGTCACTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGTTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGACCAAATC  >  NC_000913/3068417‑3068670                                                                                                                             |                                                                                                                                  acaaAAGTATCCAGGTAAACATGCGGATTCAGCCAGGTCACTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCaa                                                                                                                     <  1:54831/139‑1 (MQ=255)       gTATCCAGGTAAACATGCGGATTCAGCCAGGTCACTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCAt                                                                                                               >  1:317053/1‑139 (MQ=255)                    cATGCGGATTCAGCCAGGTCACTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCaagaa                                                                                                  >  1:206783/1‑139 (MQ=255)                               aGCCAGGTCACTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTAcgccgc                                                                                       >  1:553245/1‑139 (MQ=255)                                    ggTCACTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAg                                                                                  <  2:101858/139‑1 (MQ=255)                                         cTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATAc                                                                                                             <  1:415426/107‑1 (MQ=255)                                         cTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATAc                                                                                                             >  2:415426/1‑107 (MQ=255)                                               aCATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAgcgc                                                                       >  1:541739/1‑139 (MQ=255)                                                              taagagacaggCCTTGCTTCCTTACTTCGGCGCTGGCCAACTCAAAATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGa                                                        <  1:132029/129‑1 (MQ=255)                                                                 tCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTg                                                     >  2:658021/1‑139 (MQ=255)                                                                     tCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATc                                                 >  2:6494/1‑139 (MQ=255)                                                                            tGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAg                                                                    >  1:245706/1‑113 (MQ=255)                                                                            tGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAg                                                                    <  2:245706/113‑1 (MQ=255)                                                                                 cATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTg                                     <  1:658021/139‑1 (MQ=255)                                                                                   tGACTTCGGCGCTGGCTAACTCAATATTCCTGCTCATTGCTCCTTTAAAAGCGCAAAAACCATACCACAGCAAAAAGCCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCaaaactgtctctta                                   >  2:132029/1‑127 (MQ=255)                                                                                   tGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGa                                                        >  2:219839/1‑118 (MQ=255)                                                                                   tGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGa                                                        <  1:219839/118‑1 (MQ=255)                                                                                         cGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCaaa                             >  2:457844/1‑139 (MQ=255)                                                                                                        cAATATTACTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAAt              <  2:226975/139‑1 (MQ=255)                                                                                                                cTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGACCa      >  2:523157/1‑139 (MQ=255)                                                                                                                cTGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGACCa      >  2:98759/1‑139 (MQ=255)                                                                                                                 tGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTa                                                                                             >  2:422304/1‑51 (MQ=255)                                                                                                                 tGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTa                                                                                             <  1:422304/51‑1 (MQ=255)                                                                                                                 tGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGAcc       <  2:499277/137‑1 (MQ=255)                                                                                                                 tGCTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGAcc       >  1:499277/1‑137 (MQ=255)                                                                                                                   cTCATTGCTGCTTTAAAAGCGCCAAAACCATACca                                                                                                           <  1:638130/35‑1 (MQ=255)                                                                                                                   cTCATTGCTGCTTTAAAAGCGCCAAAACCATACca                                                                                                           >  2:638130/1‑35 (MQ=255)                                                                                                                   cTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGACCAAAt   >  1:389327/1‑139 (MQ=255)                                                                                                                   cTCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGACCAAAt   >  1:207462/1‑139 (MQ=255)                                                                                                                    tCATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGACCAAATc  <  1:98759/139‑1 (MQ=255)                                                                                                                     cATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGc                                    <  1:64962/104‑1 (MQ=255)                                                                                                                     cATTGCTGCTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGc                                    >  2:64962/1‑104 (MQ=255)                                                                                                                        tgctgcTTTAAAAGCGCCAAAACCATACCACAGCaa                                                                                                     >  1:536415/1‑36 (MQ=255)                                                                                                                        tgctgcTTTAAAAGCGCCAAAACCATACCACAGCaa                                                                                                     <  2:536415/36‑1 (MQ=255)                                                                                                                             |                                                                                                                                  ACAAAAGTATCCAGGTAAACATGCGGATTCAGCCAGGTCACTGCCAACATGGTGGCGATAATTTTCCATCTGCCTTGCTTCATGACTTCGGCGCTGGCTAACTCAATATTACTGCTCATTGCTGTTTTAAAAGCGCCAAAACCATACCACAGCAAGAAGGCTACGCCGCCCCAGGTGACCAGCGCCAGCAACCACGGCGACTGCATCAATAACGCGCTGCCACCAAAAATCCCGGCGCAAATCAGGACCAAATC  >  NC_000913/3068417‑3068670

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑