Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,213,718	A→G	L224L (CTA→CTG)	rpoD →	RNA polymerase, sigma 70 (sigma D) factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,213,718	0	A	G	100.0%	198.0 / NA	56	L224L (CTA→CTG)	rpoD	RNA polymerase, sigma 70 (sigma D) factor
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (24/32);  total (24/32)

ACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACC  >  NC_000913/3213581‑3213851                                                                                                                                          |                                                                                                                                      aCTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGcg                                                                                                                                     <  2:937574/140‑1 (MQ=255)     aCGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCt                                                                                                                                 <  2:139724/140‑1 (MQ=255)     aCGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCt                                                                                                                                 <  2:835721/140‑1 (MQ=255)     aCGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCt                                                                                                                                 <  1:323873/140‑1 (MQ=255)       gTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCa                                                                                                                               <  1:602357/140‑1 (MQ=255)       gTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCa                                                                                                                               <  1:569127/140‑1 (MQ=255)         cGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGt                                                                                                                             <  2:546825/140‑1 (MQ=255)            ttCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACg                                                                                                                          >  1:357418/1‑140 (MQ=255)            ttCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCCCAGTACg                                                                                                                          >  2:399044/1‑140 (MQ=255)                     ttCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAAcgc                                                                                                                 <  2:357418/140‑1 (MQ=255)                      tCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACg                                                                                                                          >  2:361068/1‑130 (MQ=255)                      tCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACg                                                                                                                          <  1:361068/130‑1 (MQ=255)                      tCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAAcgcg                                                                                                                >  2:126904/1‑140 (MQ=255)                      tCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAAcgcg                                                                                                                >  1:563401/1‑140 (MQ=255)                       cccAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGt                                                                                                               <  1:948794/140‑1 (MQ=255)                                aTCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATc                                                                                                      >  1:698163/1‑140 (MQ=255)                                      aCGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCAt                                                                                                       <  2:161150/133‑1 (MQ=255)                                      aCGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCAt                                                                                                       >  1:161150/1‑133 (MQ=255)                                          tGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAg                                                                                            >  2:603335/1‑140 (MQ=255)                                          tGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAg                                                                                            >  2:868997/1‑140 (MQ=255)                                            aCGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGt                                                                                          <  1:603335/140‑1 (MQ=255)                                               aaGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGc                                                                                       <  2:177475/140‑1 (MQ=255)                                                  aTGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGt                                                                                    <  2:385502/140‑1 (MQ=255)                                                    gAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCa                                                                                  >  2:658207/1‑140 (MQ=255)                                                            agaagaTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCg                                                                          <  1:833447/140‑1 (MQ=255)                                                            agaagaTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCg                                                                          >  1:502767/1‑140 (MQ=255)                                                              aagaTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCt                                                                        <  1:126904/140‑1 (MQ=255)                                                              aagaTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCt                                                                        <  2:502767/140‑1 (MQ=255)                                                                 aTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGTAAGGTCGCAGTCACGCTACCGCTCAg                                                                     >  2:203897/1‑140 (MQ=255)                                                                  tGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAgg                                                                    >  1:30664/1‑140 (MQ=255)                                                                     cGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAag                                                                 >  2:196949/1‑140 (MQ=255)                                                                      gATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAaga                                                                <  1:164409/140‑1 (MQ=255)                                                                      gATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAaga                                                                <  2:543210/140‑1 (MQ=255)                                                                        tGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGaa                                                                  >  1:416277/1‑136 (MQ=255)                                                                        tGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGaa                                                                  <  2:416277/136‑1 (MQ=255)                                                                          acgacAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATc                                                            >  2:144333/1‑140 (MQ=255)                                                                               aGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGaa                                                       <  2:894642/140‑1 (MQ=255)                                                                               aGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGaa                                                       <  1:144333/140‑1 (MQ=255)                                                                                        gatgaCAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGa                                              <  1:196949/140‑1 (MQ=255)                                                                                                caGCATCGACCCGGAACTGGCTCGTGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCa                                      <  2:395371/140‑1 (MQ=255)                                                                                                caGCATCGACCCGGAACCGGCTCGCGAAAAATTTGCGGAACTGCGCACTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCa                                      >  1:362243/1‑140 (MQ=255)                                                                                                 aGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCaa                                     >  1:914826/1‑140 (MQ=255)                                                                                                  gCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCaaa                                    <  2:563401/140‑1 (MQ=255)                                                                                                  gCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCaaa                                    <  2:614364/140‑1 (MQ=255)                                                                                                   cATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAAc                                   >  2:600508/1‑140 (MQ=255)                                                                                                     tCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAg                                 >  1:428270/1‑140 (MQ=255)                                                                                                        aCCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTc                              >  1:862224/1‑140 (MQ=255)                                                                                                        aCCCGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTc                              >  1:197438/1‑140 (MQ=255)                                                                                                                 tGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTg                     <  1:600508/140‑1 (MQ=255)                                                                                                                 cggCTCGCGAAAAATTTGCGGAACTGCGCACTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTg                     <  2:362243/139‑1 (MQ=255)                                                                                                                   gCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACTTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGcc                   >  2:253261/1‑140 (MQ=255)                                                                                                                   gCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGcc                   >  2:448084/1‑140 (MQ=255)                                                                                                                        cgAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGc              <  2:914826/140‑1 (MQ=255)                                                                                                                        cgAAAAATTTGCGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGc              >  2:324129/1‑140 (MQ=255)                                                                                                                                   cGGAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTAc   <  1:448084/140‑1 (MQ=255)                                                                                                                                   cGGAACTGCGCGCTCAGTACATTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTAc   <  1:603764/140‑1 (MQ=255)                                                                                                                                    ggAACTGCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTAcc  <  1:868997/140‑1 (MQ=255)                                                                                                                                          |                                                                                                                                      ACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACC  >  NC_000913/3213581‑3213851

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: ‑