Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,521,143	T→C	T103A (ACG→GCG)	hofO ←	DNA utilization protein HofO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,521,143	0	T	C	100.0%	205.7 / NA	58	T103A (ACG→GCG)	hofO	DNA utilization protein HofO
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (27/31);  total (27/31)

GTTTAACCCTCATGCGGCGTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGTTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTACCAGGCGA  >  NC_000913/3521007‑3521273                                                                                                                                         |                                                                                                                                   gTTTAACCCTCATGCGGCGTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGcttt                                                                                                                                 <  1:166880/140‑1 (MQ=255)           cATGCGGCGTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAAc                                                                                                                       >  2:1201602/1‑140 (MQ=255)            aTGCGGCGTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACt                                                                                                                      <  1:530340/140‑1 (MQ=255)             tGCGGCGTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTc                                                                                                                     >  1:546448/1‑140 (MQ=255)             tGCGGCGTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTc                                                                                                                     >  1:376663/1‑140 (MQ=255)               cggcgTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGc                                                                                                                   <  1:725298/140‑1 (MQ=255)                 gcgTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCt                                                                                                                 <  1:849611/140‑1 (MQ=255)                 gcgTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCt                                                                                                                 <  2:239122/140‑1 (MQ=255)                   gTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTcc                                                                                                               <  2:418878/140‑1 (MQ=255)                   gTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTcc                                                                                                               <  1:456517/140‑1 (MQ=255)                        cAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTgcg                                                                                                          <  1:258489/140‑1 (MQ=255)                                 cGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCggatggat                                                                                                 <  2:27969/140‑1 (MQ=255)                                    gAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGcc                                                                                              >  2:357857/1‑140 (MQ=255)                                     aaCAAAAGATGATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCa                                                                                             <  1:833775/140‑1 (MQ=255)                                      aCAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCggatggat                                                                                                 <  2:462788/135‑1 (MQ=255)                                      aCAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCggatggat                                                                                                 >  1:462788/1‑135 (MQ=255)                                        aaaaGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGa                                                                                          <  2:1126362/140‑1 (MQ=255)                                               catcaCCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGt                                                                                   >  1:236911/1‑140 (MQ=255)                                               catcaCCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGt                                                                                   >  1:966679/1‑140 (MQ=255)                                                    ccTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTgcgc                                                                              >  2:1183529/1‑140 (MQ=255)                                                    ccTTCCACGCTTAAAGAAAAACGGCTCACTCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACCGCACTCCTTCCCACAGCGCTTTCAACGCCAACTCGCCTTCCTGCGCGGATGGATGCCAGGAAACCAGTTgcgc                                                                              >  2:161803/1‑140 (MQ=255)                                                     cTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTgcgcg                                                                             <  2:1162970/140‑1 (MQ=255)                                                       tCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGcc                                                                           >  1:473678/1‑140 (MQ=255)                                                       tCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGcc                                                                           >  2:401460/1‑140 (MQ=255)                                                        ccACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGcct                                                                          >  1:618676/1‑139 (MQ=255)                                                         cACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTgcgcg                                                                             <  2:525473/136‑1 (MQ=255)                                                         cACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTgcgcg                                                                             >  1:525473/1‑136 (MQ=255)                                                         cACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCgg                                                                         >  2:1068043/1‑140 (MQ=255)                                                         cACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCgg                                                                         >  1:278990/1‑140 (MQ=255)                                                            gCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATa                                                                      <  1:2100/140‑1 (MQ=255)                                                            gCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATa                                                                      <  2:278990/140‑1 (MQ=255)                                                            gCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTACTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATa                                                                      <  2:966679/140‑1 (MQ=255)                                                               tAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTgcg                                                                               >  2:410919/1‑128 (MQ=255)                                                               tAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTgcg                                                                               <  1:410919/128‑1 (MQ=255)                                                                aaCGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTg                                                                  >  2:133060/1‑140 (MQ=255)                                                                      aaaCGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGaaaa                                                              >  2:106926/1‑138 (MQ=255)                                                                      aaaCGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGaaaa                                                              <  1:106926/138‑1 (MQ=255)                                                                        aCGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCa                                                          <  2:1191339/140‑1 (MQ=255)                                                                           gCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTg                                                       <  2:977302/140‑1 (MQ=255)                                                                            cTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTgg                                                      >  2:1116581/1‑140 (MQ=255)                                                                            cTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTgg                                                      >  1:262732/1‑140 (MQ=255)                                                                                    gACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAgg                                              >  1:348732/1‑140 (MQ=255)                                                                                      cGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGc                                            <  1:330765/140‑1 (MQ=255)                                                                                                tGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGtttttt                                  <  1:1201602/140‑1 (MQ=255)                                                                                                          gtAAATGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGaa                        <  2:376663/140‑1 (MQ=255)                                                                                                               tGCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAg                   <  2:1050159/140‑1 (MQ=255)                                                                                                                gCCGACGGCACTGCTTCCCACAGCGCTTTCAGCGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAg                   <  2:1072954/139‑1 (MQ=255)                                                                                                                gCCGACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAg                   >  1:1072954/1‑139 (MQ=255)                                                                                                                   gACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAg                   <  2:198983/136‑1 (MQ=255)                                                                                                                   gACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAg                   >  2:1144727/1‑136 (MQ=255)                                                                                                                   gACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAg                   >  1:198983/1‑136 (MQ=255)                                                                                                                   gACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAg                   <  1:1144727/136‑1 (MQ=255)                                                                                                                   gACGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGgt               <  1:357857/140‑1 (MQ=255)                                                                                                                    aCGGCACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGgtg              >  1:400792/1‑140 (MQ=255)                                                                                                                        cACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTa          <  1:468072/140‑1 (MQ=255)                                                                                                                        cACTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTa          <  1:1049718/140‑1 (MQ=255)                                                                                                                          cTGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTAcc        <  2:674360/140‑1 (MQ=255)                                                                                                                           tGCTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTACCa       >  1:989135/1‑140 (MQ=255)                                                                                                                             cTTCCCACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTACCAgg     >  2:6067/1‑140 (MQ=255)                                                                                                                                cccACAGCGCTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTACCAGGCGa  >  2:680278/1‑140 (MQ=255)                                                                                                                                         |                                                                                                                                   GTTTAACCCTCATGCGGCGTCTCCAGTTGTAGCGTGAACAAAAGATCATCACCTTCCACGCTTAACGAAAAACGGCTCACGCTGACGTTGCGCTCTGCCAGCCGTGTAAATGCCGACGGCACTGCTTCCCACAGCGTTTTCAACGCCAACTCGCCTCCCTGCGCGGATGGATGCCAGGAAACCAGTTGCGCGCCGGATAACTGAAAATCCAGTGGCGAAAAGGGCAGCGTTTTTTCCTCGCTGAAGGGAGCGGTGTCTACCAGGCGA  >  NC_000913/3521007‑3521273

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑