Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	160,636	C→T	intergenic (‑32/+146)	dksA ← / ← sfsA	RNA polymerase‑binding transcription factor DksA/putative DNA‑binding transcriptional regulator of maltose metabolism

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	160,636	0	C	T	100.0%	208.9 / NA	59	intergenic (‑32/+146)	dksA/sfsA	RNA polymerase‑binding transcription factor DksA/putative DNA‑binding transcriptional regulator of maltose metabolism
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (30/29);  total (30/29)

TTCATTCATATACTCTTCGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCCCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGAATGTAAATTAACCAGTT  >  NC_000913/160503‑160771                                                                                                                                      |                                                                                                                                        ttcattcaTATACTCTTCACCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGtt                                                                                                                                   <  2:102971/140‑1 (MQ=255)                ttCGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGCCGATGTTTTACGGTCTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAg                                                                                                                    >  2:540931/1‑140 (MQ=255)                ttCGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAg                                                                                                                    >  2:41088/1‑140 (MQ=255)                ttCGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAg                                                                                                                    >  1:439564/1‑140 (MQ=255)                 tCGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAgg                                                                                                                   <  2:155430/140‑1 (MQ=255)                 tCGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAgg                                                                                                                   <  1:414480/140‑1 (MQ=255)                  cGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAgg                                                                                                                   <  2:891306/139‑1 (MQ=255)                  cGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAgg                                                                                                                   >  1:891306/1‑139 (MQ=255)                   gCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGcc                                                                                                                 <  2:314191/140‑1 (MQ=255)                      cGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCt                                                                                                              <  2:439564/140‑1 (MQ=255)                      cGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCt                                                                                                              <  1:41088/140‑1 (MQ=255)                          ttCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATaa                                                                                                          <  1:883498/140‑1 (MQ=255)                             tcCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATa                                                                                                       >  2:164453/1‑140 (MQ=255)                                   tatGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGAt                                                                                                 >  2:473028/1‑140 (MQ=255)                                    atGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATg                                                                                                <  1:646145/140‑1 (MQ=255)                                      ggTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCt                                                                                              >  2:303668/1‑140 (MQ=255)                                        ttCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCttt                                                                                            >  2:524175/1‑140 (MQ=255)                                             ccccAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATg                                                                                                >  1:519468/1‑131 (MQ=255)                                             ccccAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATg                                                                                                <  2:519468/131‑1 (MQ=255)                                             ccccAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCgg                                                                                       >  1:156888/1‑140 (MQ=255)                                             ccccAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCgg                                                                                       >  1:746540/1‑140 (MQ=255)                                              cccAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGa                                                                                      <  1:16950/140‑1 (MQ=255)                                              cccAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGa                                                                                      >  2:16950/1‑140 (MQ=255)                                                 aGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGa                                                                                                  <  2:902020/125‑1 (MQ=255)                                                 aGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGa                                                                                                  >  1:902020/1‑125 (MQ=255)                                                  gCGACGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGc                                                                                  >  2:393527/1‑140 (MQ=255)                                                           agaATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTa                                                                         <  1:164453/140‑1 (MQ=255)                                                             aaTACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTaaa                                                                       >  1:122358/1‑140 (MQ=255)                                                               tACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACg                                                                     >  2:785086/1‑140 (MQ=255)                                                               tACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACg                                                                     <  1:303668/140‑1 (MQ=255)                                                                  tCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTaa                                                                  >  1:764956/1‑140 (MQ=255)                                                                  tCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTaa                                                                  <  1:860539/140‑1 (MQ=255)                                                                    aGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCt                                                                          <  1:46480/130‑1 (MQ=255)                                                                    aGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCt                                                                          >  2:46480/1‑130 (MQ=255)                                                                    aGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAaca                                                                <  1:473028/140‑1 (MQ=255)                                                                    aGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAaca                                                                <  1:393527/140‑1 (MQ=255)                                                                    aGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAaca                                                                >  2:318681/1‑140 (MQ=255)                                                                      ggACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACt                                                              >  2:421074/1‑140 (MQ=255)                                                                           aTGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAaca                                                                <  1:547569/133‑1 (MQ=255)                                                                           aTGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAaca                                                                >  2:547569/1‑133 (MQ=255)                                                                           aTGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACa                                                         <  1:573202/140‑1 (MQ=255)                                                                           aTGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACa                                                         >  1:388024/1‑140 (MQ=255)                                                                           aTGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACa                                                         >  2:573202/1‑140 (MQ=255)                                                                            tGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACaa                                                        <  1:524175/140‑1 (MQ=255)                                                                            tGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACaa                                                        <  1:785086/140‑1 (MQ=255)                                                                                      ttttGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAgg                                              >  1:357708/1‑140 (MQ=255)                                                                                        ttGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGaa                                            >  2:247074/1‑140 (MQ=255)                                                                                        ttGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGaa                                            >  2:52727/1‑140 (MQ=255)                                                                                        ttGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGaa                                            >  1:781811/1‑140 (MQ=255)                                                                                                          gCTTCTCCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCAcgc                          >  1:303525/1‑140 (MQ=255)                                                                                                             tctcCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGAc                       <  2:357708/140‑1 (MQ=255)                                                                                                             tctcCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGAc                       <  2:388024/140‑1 (MQ=255)                                                                                                              ctcCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGAcc                      <  2:303525/140‑1 (MQ=255)                                                                                                              ctcCTTAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGAcc                      <  1:338016/140‑1 (MQ=255)                                                                                                                  ttAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGaa                  <  2:58728/140‑1 (MQ=255)                                                                                                                   tAACACGCACTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGAAt                 <  1:247074/140‑1 (MQ=255)                                                                                                                       acaaaCTATCGATCCTCATGTTCGGGGGTAAACAGCGGCTGGTATAAATATCACATGCTTTTCCGGCTGGCAATTATCGAAACGTAACACTTGACAACTGTGGGAGGATATGCACATATGCGCACGTGACCAGAATGTaa             >  2:711099/5‑140 (MQ=255)                                                                                                                            cTATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGAATGTAAATTaa        >  2:779273/1‑140 (MQ=255)                                                                                                                             tATCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGAATGTAAATTAAc       <  2:470639/140‑1 (MQ=255)                                                                                                                               tCGATCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGAATGTAAATTAACCa     >  2:484525/1‑140 (MQ=255)                                                                                                                                  aTCCTCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGAATGTAAATTAACCAGtt  >  2:354258/1‑140 (MQ=255)                                                                                                                                      |                                                                                                                                        TTCATTCATATACTCTTCGCCCGGCTTCTCCTGATATGGTTCCACCCCAGCGATGGCGAGAATACTCAGGGACGATGTTTTACGGTTTTGCCCTTCTTGCATGTTGCTTCTCCTTAACACGCACTATCGATCCCCATGTTCGGGGGAAAAATGAGGCCGCTATAAATAGCAGATGCTTTTCCGGATAGCAATTATCTAAACGTAACACTTGACAACTGTGTGAGGAAAAGCGTATTTGCGCACGCGACCAGAATGTAAATTAACCAGTT  >  NC_000913/160503‑160771

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑