Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	34,120	(T)9→8	intergenic (+82/‑180)	carB → / → caiF	carbamoyl‑phosphate synthase large subunit/cai operon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	34,112	0	T	.	100.0%	147.7 / NA	35	intergenic (+74/‑188)	carB/caiF	carbamoyl‑phosphate synthase large subunit/cai operon transcriptional activator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (19/16);  total (19/16)

ATGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCGTTTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATGG  >  NC_000913/33986‑34236                                                                                                                               |                                                                                                                             aTGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCa                                                                                                                 >  1:614734/1‑139 (MQ=255)  tGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCAt                                                                                                                <  2:614734/139‑1 (MQ=255)                                             aTCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAAt                                                                                                       <  1:160974/105‑1 (MQ=255)                                             aTCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAAt                                                                                                       >  2:160974/1‑105 (MQ=255)                                                       aGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGc                                                           >  2:476823/1‑139 (MQ=255)                                                       aGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGc                                                           >  2:359672/1‑139 (MQ=255)                                                         cGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCCTTAAGTAAATCTTTTGGGGGATCGATATTTTTGATGACATAAACAGGATTTAGCTc                                                         >  2:621927/1‑139 (MQ=255)                                                         cGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTc                                                         >  2:521222/1‑139 (MQ=255)                                                                  gCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGCCATAAGCAGGATTTAGCTCACACTtctc                                                <  1:331466/139‑1 (MQ=255)                                                                         tttttCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTg                                         <  1:476823/139‑1 (MQ=255)                                                                         tttttCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTg                                         <  1:521222/139‑1 (MQ=255)                                                                              cATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCt                                                          <  2:92205/117‑1 (MQ=255)                                                                              cATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCt                                                          >  1:92205/1‑117 (MQ=255)                                                                                tCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGc                                  >  1:575567/1‑139 (MQ=255)                                                                                 ccGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCa                                 <  1:359672/139‑1 (MQ=255)                                                                                                 aTAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATcc                 >  2:275990/1‑139 (MQ=255)                                                                                                  tAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCca                <  2:575567/139‑1 (MQ=255)                                                                                                  tAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCca                <  1:275990/139‑1 (MQ=255)                                                                                                         tACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGatata                    <  2:249139/128‑1 (MQ=255)                                                                                                         tACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGatata                    >  1:249139/1‑128 (MQ=255)                                                                                                          aCGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCcac               <  2:700027/132‑1 (MQ=255)                                                                                                          aCGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATAACcac               >  1:700027/1‑132 (MQ=255)                                                                                                              ttCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCa                                 <  2:209445/110‑1 (MQ=255)                                                                                                              ttCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCa                                 >  1:209445/1‑110 (MQ=255)                                                                                                               tctcTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGc                                  <  1:640825/108‑1 (MQ=255)                                                                                                               tctcTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGc                                  >  2:640825/1‑108 (MQ=255)                                                                                                               tctcTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATa                               <  1:342373/111‑1 (MQ=255)                                                                                                               tctcTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATa                               >  2:342373/1‑111 (MQ=255)                                                                                                               tctcTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATg   >  1:303188/1‑139 (MQ=255)                                                                                                                ctctGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATgg  >  2:498721/1‑139 (MQ=255)                                                                                                                ctctGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATgg  >  2:192662/1‑139 (MQ=255)                                                                                                                        aGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAg                                      >  2:601239/1‑95 (MQ=255)                                                                                                                        aGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAg                                      <  1:601239/95‑1 (MQ=255)                                                                                                                        aGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATa                               <  2:205026/102‑1 (MQ=255)                                                                                                                        aGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATa                               >  1:205026/1‑102 (MQ=255)                                                                                                                               |                                                                                                                             ATGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCGTTTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATGG  >  NC_000913/33986‑34236

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑