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%	250.7 / NA	62	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 . (30/32);  total (30/32)

ATGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCGTTTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATGGCC  >  NC_000913/33986‑34238                                                                                                                               |                                                                                                                               aTGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCa                                                                                                                   <  2:945063/139‑1 (MQ=255) aTGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCa                                                                                                                   <  1:207083/139‑1 (MQ=255)         gAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTaa                                                                                                           <  2:626546/139‑1 (MQ=255)                            aGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGata                                                                                        <  2:325161/139‑1 (MQ=255)                                   gcacgcacAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTtg                                                                                  >  2:931551/1‑138 (MQ=255)                                   gcacgcacAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTtg                                                                                  <  1:931551/138‑1 (MQ=255)                                        cacaGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCtttt                                                                                                    <  1:811109/115‑1 (MQ=255)                                        cacaGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCtttt                                                                                                    >  2:811109/1‑115 (MQ=255)                                         acaGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATCCGGTTCTCTGATGACGACCG‑TTTTTTTTGTCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACAt                                                                           <  2:777711/139‑1 (MQ=255)                                            gATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAAt                                                                                             >  1:335872/1‑118 (MQ=255)                                            gATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAAt                                                                                             <  2:335872/118‑1 (MQ=255)                                            gATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAg                                                                        >  1:1586739/1‑139 (MQ=255)                                                  ataataGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAt                                                                  <  1:1464390/139‑1 (MQ=255)                                                       aGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCGttttttttg                                                                                                                        <  2:1367222/81‑2 (MQ=255)                                                       aGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCGttttttttg                                                                                                                        >  1:1367222/1‑80 (MQ=255)                                                         cGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCa                                                                      >  2:1201891/1‑128 (MQ=255)                                                         cGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCa                                                                      <  1:1201891/128‑1 (MQ=255)                                                         cGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAtt                                                                 >  2:286054/1‑133 (MQ=255)                                                         cGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAtt                                                                 <  1:286054/133‑1 (MQ=255)                                                         cGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTc                                                           >  2:199048/1‑139 (MQ=255)                                                           tgtCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTcac                                                         >  1:1001911/1‑139 (MQ=255)                                                            gtCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTcaca                                                        >  2:109787/1‑139 (MQ=255)                                                             tCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCacac                                                       >  2:1114947/1‑139 (MQ=255)                                                                 ggCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAg                                                                        <  1:106846/118‑1 (MQ=255)                                                                 ggCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAg                                                                        >  2:106846/1‑118 (MQ=255)                                                                 ggCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAt                                                                  <  2:283298/124‑1 (MQ=255)                                                                 ggCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAt                                                                  >  1:283298/1‑124 (MQ=255)                                                                       tatTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCa                                                                                                                   >  1:847104/1‑69 (MQ=255)                                                                       tatTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCa                                                                                                                   <  2:847104/69‑1 (MQ=255)                                                                       tatTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCa                                                                                                                   >  1:1603515/1‑69 (MQ=255)                                                                       tatTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCa                                                                                                                   <  2:1603515/69‑1 (MQ=255)                                                                         tttttCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTc                                                           <  1:294839/123‑1 (MQ=255)                                                                         tttttCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTc                                                           >  2:294839/1‑123 (MQ=255)                                                                         tttgtCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTg                                           <  1:1114947/139‑1 (MQ=255)                                                                                   gCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATa                                 >  1:1587035/1‑139 (MQ=255)                                                                                   gCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATa                                 <  2:1586739/139‑1 (MQ=255)                                                                                    cTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGAc                                                                             >  1:1420586/1‑94 (MQ=255)                                                                                    cTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGAc                                                                             <  2:1420586/94‑1 (MQ=255)                                                                                      aaTTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTa                              <  2:913533/139‑1 (MQ=255)                                                                                            aTCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTa                                                                                                                <  1:1121520/51‑1 (MQ=255)                                                                                            aTCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTa                                                                                                                >  2:1121520/1‑51 (MQ=255)                                                                                            aTCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAtt                                                                 <  1:1176998/98‑1 (MQ=255)                                                                                            aTCGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTGTGGGGAATCGATATTTTTGATGACATAAGCAGGAtt                                                                 >  2:1176998/1‑98 (MQ=255)                                                                                              cGAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGatata                      >  2:1536762/1‑139 (MQ=255)                                                                                               gAATAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGatatat                     >  2:480401/1‑139 (MQ=255)                                                                                                 aTAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATcc                   >  2:87423/1‑139 (MQ=255)                                                                                                 aTAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATcc                   >  2:328400/1‑139 (MQ=255)                                                                                                  tAACTAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCca                  <  1:328400/139‑1 (MQ=255)                                                                                                      tAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCG‑CGGTGAAGTTGCATACTATc                            >  2:686804/1‑124 (MQ=255)                                                                                                      tAATACGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCG‑CGGTGAAGTTGCATACTATc                            <  1:686804/124‑1 (MQ=255)                                                                                                           cGGTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTaa         >  1:1275301/1‑139 (MQ=255)                                                                                                             gTTCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAata       <  1:1536762/139‑1 (MQ=255)                                                                                                              ttCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCa                                   >  1:921424/1‑110 (MQ=255)                                                                                                              ttCTCTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCa                                   <  2:921424/110‑1 (MQ=255)                                                                                                               tctcTGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATg     >  2:1452548/1‑139 (MQ=255)                                                                                                                ctctGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAtt                                                                 <  1:744307/78‑1 (MQ=255)                                                                                                                ctctGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGAtt                                                                 >  2:744307/1‑78 (MQ=255)                                                                                                                  ctGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATGGcc  <  1:87423/139‑1 (MQ=255)                                                                                                                  ctGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATGGcc  <  2:1587035/139‑1 (MQ=255)                                                                                                                  ctGATGAGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATGGcc  <  1:199048/139‑1 (MQ=255)                                                                                                                   tgatgaGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGa                                                                                          <  1:978563/50‑1 (MQ=255)                                                                                                                   tgatgaGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGa                                                                                          >  2:978563/1‑50 (MQ=255)                                                                                                                   tgatgaGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTg                                           <  1:1362095/97‑1 (MQ=255)                                                                                                                   tgatgaGGACCG‑TTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTg                                           >  2:1362095/1‑97 (MQ=255)                                                                                                                               |                                                                                                                               ATGCGACTGAAAAAGTAATTTCGGTGCAGGAAATGCACGCACAGATCAAATAATAGCGTGTCATGGCAGATATTTTTCATCCGCTAATTTGATCGAATAACTAATACGGTTCTCTGATGAGGACCGTTTTTTTTTGCCCATTAAGTAAATCTTTTGGGGAATCGATATTTTTGATGACATAAGCAGGATTTAGCTCACACTTATCGACGGTGAAGTTGCATACTATCGATATATCCACAATTTTAATATGGCC  >  NC_000913/33986‑34238

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑