Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,510,984	C→T	intergenic (+98/‑17)	yfeO → / → ypeC	putative ion channel protein/DUF2502 family putative periplasmic protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,510,984	0	C	T	100.0%	215.1 / NA	67	intergenic (+98/‑17)	yfeO/ypeC	putative ion channel protein/DUF2502 family putative periplasmic protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (36/31);  total (36/31)

ATCGTCCGAAGCAACAGCCACCCCACGATAACGTTTAGCAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGCGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAATTACAAATTGGCGATCGC  >  NC_000913/2510849‑2511111                                                                                                                                        |                                                                                                                                aTCGTCCGAAGCAACAGCCACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTCATGCTTTAAGAGGTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGtgtg                                                                                                                              >  1:184351/1‑139 (MQ=255)  tCGTCCGAAGCAACAGCCACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGa                                                                                                                             <  1:728191/139‑1 (MQ=255)    gTCCGAAGCAACAGCCACCCCACGATAACATTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGGGTGTGAAg                                                                                                                           <  1:36536/139‑1 (MQ=255)       cGAAGCAACAGCCACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGgag                                                                                                                        <  1:269528/139‑1 (MQ=255)        gAAGCAACAGCCACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGa                                                                                                                             <  2:465220/133‑1 (MQ=255)        gAAGCAACAGCCACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGa                                                                                                                             >  1:465220/1‑133 (MQ=255)        gAAGCAACAGCCACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGgaga                                                                                                                       >  1:997705/1‑139 (MQ=255)                  ccACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAg                                                                                                                           <  2:594097/125‑1 (MQ=255)                  ccACCCCACGATAACGTTTAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAg                                                                                                                           >  1:594097/1‑125 (MQ=255)                                   ttAACAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTg                                                                                            <  2:888423/139‑1 (MQ=255)                                            aaTGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGgccgcc                                                                                   <  1:1348561/139‑1 (MQ=255)                                                           gATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTAcc                                                                    <  1:40022/139‑1 (MQ=255)                                                             tttAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGtt                                                                                                            <  1:810846/97‑1 (MQ=255)                                                             tttAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGtt                                                                                                            >  2:810846/1‑97 (MQ=255)                                                             tttAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTAcccc                                                                  >  1:1369096/1‑139 (MQ=255)                                                               tAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGc                                                                >  1:785293/1‑139 (MQ=255)                                                               tAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGc                                                                >  2:1388861/1‑139 (MQ=255)                                                                aaGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATg                                                                             >  1:496009/1‑125 (MQ=255)                                                                aaGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATg                                                                             <  2:496009/125‑1 (MQ=255)                                                                       aTGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGccc                                                                                  >  2:966861/1‑113 (MQ=255)                                                                       aTGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTgcagca                                                        >  1:109609/1‑139 (MQ=255)                                                                       aTGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTgcagca                                                        >  2:3268/1‑139 (MQ=255)                                                                       aTGGCGATGATACGGAGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGgccgcgc                                                                                  <  1:966861/113‑3 (MQ=255)                                                                             atgatACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCaaa                                                      >  2:528996/1‑135 (MQ=255)                                                                             atgatACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCaaa                                                      <  1:528996/135‑1 (MQ=255)                                                                                   cGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGaa                                            >  2:1550377/1‑139 (MQ=255)                                                                                      ggCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATc                                         >  2:1148205/1‑139 (MQ=255)                                                                                       gCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCa                                        <  1:1148205/139‑1 (MQ=255)                                                                                       gCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCa                                        >  2:228455/1‑139 (MQ=255)                                                                                        cTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCaaa                                                      >  1:1008523/1‑124 (MQ=255)                                                                                        cTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCaaa                                                      <  2:1008523/124‑1 (MQ=255)                                                                                         tttACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCAcc                                      <  2:109609/139‑1 (MQ=255)                                                                                          ttACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAAt                                          >  2:1413114/1‑134 (MQ=255)                                                                                          ttACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAAt                                          <  1:1413114/134‑1 (MQ=255)                                                                                          ttACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCAccc                                     >  2:1111182/1‑139 (MQ=255)                                                                                           tACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCt                                    >  1:153526/1‑139 (MQ=255)                                                                                                ccccGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCa                                                                                                          >  1:391947/1‑64 (MQ=255)                                                                                                ccccGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCa                                                                                                          <  2:391947/64‑1 (MQ=255)                                                                                                ccccGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTAc                                                                     >  2:298850/1‑101 (MQ=255)                                                                                                ccccGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTAc                                                                     <  1:298850/101‑1 (MQ=255)                                                                                                 cccGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGcc                              >  1:1205040/1‑139 (MQ=255)                                                                                                       atatTGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCatcaat                        <  2:1578564/139‑1 (MQ=255)                                                                                                           tGCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCaaa                    >  2:1224003/1‑139 (MQ=255)                                                                                                            gCGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAAt                   >  2:593506/1‑139 (MQ=255)                                                                                                             cGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGAt                                                                              <  1:1441132/79‑1 (MQ=255)                                                                                                             cGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGAt                                                                              >  2:1441132/1‑79 (MQ=255)                                                                                                             cGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGc                                                                >  2:1303708/1‑93 (MQ=255)                                                                                                             cGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGc                                                                <  1:1303708/93‑1 (MQ=255)                                                                                                             cGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACg                                                    >  1:450639/1‑105 (MQ=255)                                                                                                             cGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACg                                                    <  2:450639/105‑1 (MQ=255)                                                                                                             cGTTAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAAtt                  >  2:558851/1‑139 (MQ=255)                                                                                                               ttAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAATTAc                >  2:433828/1‑139 (MQ=255)                                                                                                                tAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGaa                                                                                                                      <  2:166227/36‑1 (MQ=255)                                                                                                                tAACAGGCCGCTGACGGCTTCGAGTGTGAAGGAGaa                                                                                                                      >  1:166227/1‑36 (MQ=255)                                                                                                                 aaCAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAATTACaa              <  1:1224003/139‑1 (MQ=255)                                                                                                                  aCAGGCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAATTACaaa             >  2:1538191/1‑139 (MQ=255)                                                                                                                      gCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGaaa                                           >  1:878681/1‑105 (MQ=255)                                                                                                                      gCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGaaa                                           <  2:878681/105‑1 (MQ=255)                                                                                                                      gCCGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAATTACAAATTgg         <  1:1111182/139‑1 (MQ=255)                                                                                                                       ccGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCa                                                                                                          <  2:1012831/41‑1 (MQ=255)                                                                                                                       ccGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCa                                                                                                          >  1:1012831/1‑41 (MQ=255)                                                                                                                       ccGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACg                                                    <  2:330880/95‑1 (MQ=255)                                                                                                                       ccGCTGACGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACg                                                    >  1:330880/1‑95 (MQ=255)                                                                                                                             aCGGCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAATTACAAATTGgcgatcgc  <  1:433828/139‑1 (MQ=255)                                                                                                                                gCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCa                                                                                                     <  1:1491755/37‑1 (MQ=255)                                                                                                                                gCTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCa                                                                                                     >  2:1491755/1‑37 (MQ=255)                                                                                                                                 cTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTg                                <  2:1101725/105‑1 (MQ=255)                                                                                                                                 cTTCGAGTGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTg                                >  1:1101725/1‑105 (MQ=255)                                                                                                                                        |                                                                                                                                ATCGTCCGAAGCAACAGCCACCCCACGATAACGTTTAGCAAAAAATGCTCTCCTTTATGATTTAAGAGTTATGGCGATGATACGGGGCTTTACCTCCCCGTAATATTGCGTTAACAGGCCGCTGACGGCTTCGAGCGTGAAGGAGAATAACAATGTTCAGGTCACTGTTTCTGGCGGCCGCCCTGATGGCATTTACCCCGCTTGCAGCAAACGCAGGTGAAATCACCCTACTGCCATCAATCAAATTACAAATTGGCGATCGC  >  NC_000913/2510849‑2511111

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑