Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,394,698	T→C	intergenic (‑252/+53)	mreB ← / ← csrD	rod shape‑determining protein MreB/RNase E specificity factor CsrD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,394,698	0	T	C	100.0%	106.7 / NA	30	intergenic (‑252/+53)	mreB/csrD	rod shape‑determining protein MreB/RNase E specificity factor CsrD
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (17/13);  total (17/13)

CAAATCTCTGCCTGAGTCCAGAAAGGCTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCC  >  NZ_CP009273/3394576‑3394828                                                                                                                           |                                                                                                                                   cAAATCTCTGCCTGAGTCCAGAAAGGCTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAgc                                                                                                                     <  2:592408/138‑1 (MQ=255)        ctGCCTGAGTCCAGAAAGGCTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCatta                                                                                                             >  1:526850/1‑139 (MQ=255)              gAGTCCAGAAAGGCTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTAc                                                                                                       >  1:302376/1‑139 (MQ=255)                gTCCAGAAAGGCTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGt                                                                                                     >  2:119184/1‑139 (MQ=255)                       aaGGCTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACg                                                                                              <  2:509650/139‑1 (MQ=255)                           cTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGAt                                                                                           >  2:442210/1‑138 (MQ=255)                           cTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGAt                                                                                           >  1:239360/1‑138 (MQ=255)                                    tCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCa                                                                                                                >  2:738586/1‑108 (MQ=255)                                    tCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCa                                                                                                                <  1:738586/108‑1 (MQ=255)                                     cagcagCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAgg                                                                                >  1:853486/1‑139 (MQ=255)                                        cagcaTTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGtt                                                                              >  2:305465/1‑138 (MQ=255)                                                            cAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAat                                                         <  2:526850/139‑1 (MQ=255)                                                               ccGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATAtt                                                      >  1:693969/1‑139 (MQ=255)                                                                   gTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATAtttttt                                                  <  1:767242/139‑1 (MQ=255)                                                                    tAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATAtttttt                                                  >  2:631409/1‑138 (MQ=255)                                                                       ggTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACg                                              <  1:305465/139‑1 (MQ=255)                                                                        gTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGt                                             <  1:304135/139‑1 (MQ=255)                                                                                    cATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGt                                  <  1:672414/138‑1 (MQ=255)                                                                                          tgctgcAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCtgtg                           <  1:660137/139‑1 (MQ=255)                                                                                           gctgcAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCtgt                            >  2:639573/1‑137 (MQ=255)                                                                                            ctgcAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAg                         >  1:416135/1‑139 (MQ=255)                                                                                              gcAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCACGTGGCTGTGAGGa                       >  2:69575/1‑139 (MQ=255)                                                                                              gcAACAATCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGa                       >  2:577431/1‑139 (MQ=255)                                                                                                     tCTGGCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGaa                 >  2:637614/1‑138 (MQ=255)                                                                                                         gCGAGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAAt            >  1:850854/1‑139 (MQ=255)                                                                                                            aGCAGACAAGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATccc         >  2:45636/1‑139 (MQ=255)                                                                                                                   aaGCACCCCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGccc  <  1:535003/139‑1 (MQ=255)                                                                                                                   aaGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGccc  <  2:686553/139‑1 (MQ=255)                                                                                                                   aaGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGccc  <  2:853486/139‑1 (MQ=255)                                                                                                                   aaGCACACCCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGccc  <  1:552557/139‑1 (MQ=255)                                                                                                                           |                                                                                                                                   CAAATCTCTGCCTGAGTCCAGAAAGGCTTAATGCATCAGCAGCATTCCTCGCCTGTTTGCAACCGCGTAAGGTCATTCATCTGCATATGTGCTGCAACAATCTGGCGAGCAGACAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCC  >  NZ_CP009273/3394576‑3394828

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑