Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,073,732	C→T	A94T (GCG→ACG)	rutA ←	pyrimidine oxygenase, FMN‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,073,732	0	C	T	100.0%	160.0 / NA	50	A94T (GCG→ACG)	rutA	pyrimidine oxygenase, FMN‑dependent
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/26);  total (24/26)

GCCAGTCACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGCCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTA  >  NC_000913/1073598‑1073865                                                                                                                                       |                                                                                                                                      gccagTCACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGc                                                                                                                                   <  2:346469/139‑1 (MQ=255)                  cGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:383807/139‑1 (MQ=255)                        aaCGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGcccc                                                                                                                                <  2:1355763/119‑1 (MQ=255)                        aaCGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGcccc                                                                                                                                >  1:1355763/1‑119 (MQ=255)                         aCGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCa                                                                                                           <  1:689383/139‑1 (MQ=255)                                ccAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  1:1178227/139‑1 (MQ=255)                                ccAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  1:1249856/139‑1 (MQ=255)                                  agagATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAACCCCGCCATCAAGGTGAACGACTCAAGGTTGTGa                                                                                                  <  1:27495/139‑1 (MQ=255)                                      aTGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATccc                                                                                              >  2:142020/1‑139 (MQ=255)                                              gATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  2:353424/1‑111 (MQ=255)                                              gATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  1:353424/111‑1 (MQ=255)                                                    tGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTg                                                                                >  2:862343/1‑139 (MQ=255)                                                     gCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTgc                                                                               >  2:816830/1‑139 (MQ=255)                                                     gCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTgc                                                                               >  2:194694/1‑139 (MQ=255)                                                            tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    >  2:737939/1‑111 (MQ=255)                                                            tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  1:737939/111‑1 (MQ=255)                                                            tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCaaa                                                                        >  1:476055/1‑139 (MQ=255)                                                            tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCaaa                                                                        >  1:33273/1‑139 (MQ=255)                                                            tACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCaaa                                                                        >  1:176989/1‑139 (MQ=255)                                                             aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCa                                                                                                                         >  2:1375544/1‑89 (MQ=255)                                                             aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCa                                                                                                                         <  1:1375544/89‑1 (MQ=255)                                                             aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  1:1196513/1‑96 (MQ=255)                                                             aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:1196513/96‑1 (MQ=255)                                                                ggCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                    <  1:862343/139‑1 (MQ=255)                                                                 gCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    <  2:850413/106‑1 (MQ=255)                                                                 gCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                    >  1:850413/1‑106 (MQ=255)                                                                     cgaTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCg                                                                                                                               >  1:54204/1‑75 (MQ=255)                                                                     cgaTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCg                                                                                                                               <  2:54204/75‑1 (MQ=255)                                                                       aTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGtt                                                             <  2:476055/139‑1 (MQ=255)                                                                       aTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGtt                                                             <  2:176989/139‑1 (MQ=255)                                                                                 gTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  1:1066893/1‑76 (MQ=255)                                                                                 gTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:1066893/76‑1 (MQ=255)                                                                                           ggTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaa                                         >  1:36797/1‑139 (MQ=255)                                                                                               gcagcaGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaatcga                                     <  1:142020/139‑1 (MQ=255)                                                                                                cagcagTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaatcgaa                                    >  1:141438/1‑139 (MQ=255)                                                                                                 agcagTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaatcgaaa                                   <  1:33938/139‑1 (MQ=255)                                                                                                      tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGcc                                                                                                                             <  2:890047/44‑1 (MQ=255)                                                                                                      tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGcc                                                                                                                             >  1:890047/1‑44 (MQ=255)                                                                                                         cGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  >  1:707292/1‑52 (MQ=255)                                                                                                         cGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                  <  2:707292/52‑1 (MQ=255)                                                                                                                   aaTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGCCTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                    <  1:1334162/88‑1 (MQ=255)                                                                                                                   aaTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                    >  2:1334162/1‑88 (MQ=255)                                                                                                                    aTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGc                                                                 >  2:1389623/1‑90 (MQ=255)                                                                                                                    aTGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGc                                                                 <  1:1389623/90‑1 (MQ=255)                                                                                                                         cgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCttt                  >  2:153429/1‑132 (MQ=255)                                                                                                                         cgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCttt                  <  1:153429/132‑1 (MQ=255)                                                                                                                         cgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGcaca           >  1:1167819/1‑139 (MQ=255)                                                                                                                           aGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAAt         <  1:602695/139‑1 (MQ=255)                                                                                                                             gTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATgg       >  2:209418/1‑139 (MQ=255)                                                                                                                                  ggCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTa  <  1:194694/139‑1 (MQ=255)                                                                                                                                       |                                                                                                                                      GCCAGTCACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGCCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTA  >  NC_000913/1073598‑1073865

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑