Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,994,492	T→C	pseudogene (412/444 nt)	ygeK ←	putative DNA‑binding transcriptional regulator YgeK

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,994,492	0	T	C	100.0%	214.4 / NA	59	pseudogene (412/444 nt)	ygeK	putative DNA‑binding transcriptional regulator YgeK
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (37/22);  total (37/22)

AAAAGAGACAGCAATATGCCCCAAAATATATATTGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGTTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTGTAA  >  NC_000913/2994357‑2994627                                                                                                                                         |                                                                                                                                        aaaaGAGACAGCAATATGCCCCAAAATATATATTGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTg                                                                                                                                     >  1:366189/1‑140 (MQ=255)      agaCAGCAATATGCCCCAAAATATATATTGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCaa                                                                                                                                <  2:366189/140‑1 (MQ=255)           gCAATATGCCCCAAAATATATATTGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGa                                                                                                                           <  2:663223/140‑1 (MQ=255)                atGCCCCAAAATATATATTGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCa                                                                                                                      <  2:317199/140‑1 (MQ=255)                       aaaaTATATATTGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGaa                                                                                                               <  1:333258/140‑1 (MQ=255)                                  tGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATttc                                                                                                    >  1:727809/1‑140 (MQ=255)                                     atataCCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATttcttc                                                                                                 >  1:243591/1‑140 (MQ=255)                                         aCCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGa                                                                                             >  1:270545/1‑140 (MQ=255)                                         aCCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGa                                                                                             >  2:948076/1‑140 (MQ=255)                                         aCCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGCAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGa                                                                                             >  1:370481/1‑140 (MQ=255)                                         aCCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCACACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGa                                                                                             >  1:936245/1‑140 (MQ=255)                                           cAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGata                                                                                           >  1:359932/1‑140 (MQ=255)                                           cAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGata                                                                                           >  1:949238/1‑140 (MQ=255)                                             ggCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATAtt                                                                                         >  2:586595/1‑140 (MQ=255)                                             ggCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATAtt                                                                                         <  2:949238/140‑1 (MQ=255)                                             ggCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCACACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATAtt                                                                                         <  2:936245/140‑1 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTTAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTg                                                                                        >  1:980930/1‑140 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTCTTTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATAtt                                                                                         >  1:194902/1‑140 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATttct                                                                                                   <  1:50879/129‑1 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATttct                                                                                                   >  2:50879/1‑129 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTg                                                                                        >  1:38751/1‑140 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTg                                                                                        >  1:273829/1‑140 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTg                                                                                        >  1:898521/1‑140 (MQ=255)                                              gCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTg                                                                                        >  2:321964/1‑140 (MQ=255)                                                ttAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAg                                                                                      <  2:69521/140‑1 (MQ=255)                                                     gAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTCTTTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTa                                                                                  <  2:194902/140‑1 (MQ=255)                                                            aCAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTc                                                                          >  1:178013/1‑140 (MQ=255)                                                                tCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACt                                                                      <  1:792171/140‑1 (MQ=255)                                                                tCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACt                                                                      >  2:886393/1‑140 (MQ=255)                                                                    aaGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGttt                                                                  <  1:755660/140‑1 (MQ=255)                                                                            aGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCtt                                                          <  2:986653/140‑1 (MQ=255)                                                                             gCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTa                                                         <  1:321964/140‑1 (MQ=255)                                                                                 aaTGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTg                                                     >  2:980933/1‑140 (MQ=255)                                                                                           aaGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTa                                           >  1:502967/1‑140 (MQ=255)                                                                                                   ttttttttATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGAttt                                    >  2:807878/1‑140 (MQ=255)                                                                                                   ttttttttATATAGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGAttt                                    <  2:46466/140‑1 (MQ=255)                                                                                                        tttATATAGTGCAAACACCCATACGCAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCtttg                               <  2:370481/140‑1 (MQ=255)                                                                                                             ataGTGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTttgtttgt                          >  1:763043/1‑140 (MQ=255)                                                                                                                 tGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTa                      >  1:2027/1‑140 (MQ=255)                                                                                                                 tGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTa                      >  2:933132/1‑140 (MQ=255)                                                                                                                 tGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTa                      >  2:928037/1‑140 (MQ=255)                                                                                                                 tGCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTa                      >  2:113181/1‑140 (MQ=255)                                                                                                                 cgCAAACACCCATACGTAAAGCTGCTTTGATCAACGCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTa                      >  2:674310/2‑140 (MQ=255)                                                                                                                  gCAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTAc                     <  2:763043/140‑1 (MQ=255)                                                                                                                   cAAACACCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTAcc                    <  1:948076/140‑1 (MQ=255)                                                                                                                        acCCATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAg               <  1:980933/140‑1 (MQ=255)                                                                                                                          ccATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCt             <  1:886393/140‑1 (MQ=255)                                                                                                                           cATACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTa            >  1:427001/1‑140 (MQ=255)                                                                                                                             tACGTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATg          >  2:725373/1‑140 (MQ=255)                                                                                                                                gTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTAcc                    <  2:873060/127‑1 (MQ=255)                                                                                                                                gTAAAGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTAcc                    >  1:873060/1‑127 (MQ=255)                                                                                                                                  aaaGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTg     >  2:32064/1‑140 (MQ=255)                                                                                                                                  aaaGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTg     >  2:31449/1‑140 (MQ=255)                                                                                                                                    aGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTAt           <  1:667383/132‑1 (MQ=255)                                                                                                                                    aGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTAt           >  2:667383/1‑132 (MQ=255)                                                                                                                                    aGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTGTa   >  2:817998/1‑140 (MQ=255)                                                                                                                                    aGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTGTa   >  2:33103/1‑140 (MQ=255)                                                                                                                                    aGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTGTa   <  1:357170/140‑1 (MQ=255)                                                                                                                                    aGCTGCTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCCTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTGTa   >  1:766277/1‑140 (MQ=255)                                                                                                                                     gctgctTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTGTaa  <  1:31449/140‑1 (MQ=255)                                                                                                                                         |                                                                                                                                        AAAAGAGACAGCAATATGCCCCAAAATATATATTGTATATACCAGGCTTAATGAACTAGACAATCGTAAGGCTTCAGCAAAATGAGCCTAAAGCCTC‑TTTTTTTTATATAGTGCAAACACCCATACGTAAAGCTGTTTTGATCAACTCGATACCACTGTGAACATCTAATTTCTTCATGATATTGAGTCTATGAGTTTCGACTGTTTTCCTGCTTAACTGCAAGAAATTAGCGATTTCTTTGTTTGTTTTACCATCAGCTATGAGTTGTAA  >  NC_000913/2994357‑2994627

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑