Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,401,922	G→A	L471L (CTA→TTA)	csrD ←	regulator of CsrB and CsrC decay

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,401,922	0	G	A	100.0%	220.8 / NA	62	L471L (CTA→TTA)	csrD	regulator of CsrB and CsrC decay
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (25/37);  total (25/37)

ATAATTATGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAGTGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTCGCGATGATGAA  >  NC_000913/3401789‑3402056                                                                                                                                      |                                                                                                                                       ataatTATGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCACCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAAt                                                                                                                                  >  1:647755/1‑140 (MQ=255)   aatTATGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATaa                                                                                                                                <  1:647995/140‑1 (MQ=255)     ttATGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTAAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGa                                                                                                                              <  1:245060/140‑1 (MQ=255)       aTGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACg                                                                                                                            >  1:208105/1‑140 (MQ=255)        tGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGTATAAGACgg                                                                                                                           <  1:535949/140‑1 (MQ=255)        tGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACgg                                                                                                                           >  1:53725/1‑140 (MQ=255)         gCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGc                                                                                                                          <  2:208105/140‑1 (MQ=255)              ttCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGAtt                                                                                                                     >  2:764828/1‑140 (MQ=255)              ttCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGAtt                                                                                                                     >  2:76273/1‑140 (MQ=255)               tCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGAttt                                                                                                                    >  2:148261/1‑140 (MQ=255)                  ttGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCa                                                                                                                 <  1:196921/140‑1 (MQ=255)                    gtgATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGa                                                                                                               <  1:682881/140‑1 (MQ=255)                    gtgATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGa                                                                                                               <  2:422399/140‑1 (MQ=255)                    gtgATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGa                                                                                                               <  1:692432/140‑1 (MQ=255)                    gtgATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGa                                                                                                               <  1:539845/140‑1 (MQ=255)                            tCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATa                                                                                                       <  2:15492/140‑1 (MQ=255)                                 ttGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCtt                                                                                                  >  2:557072/1‑140 (MQ=255)                                       tAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATa                                                                                            <  1:404968/140‑1 (MQ=255)                                       tAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATa                                                                                            <  2:268200/140‑1 (MQ=255)                                            tATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCa                                                                                       >  2:597141/1‑140 (MQ=255)                                            tATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCa                                                                                       <  1:85562/140‑1 (MQ=255)                                              tCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCg                                                                                               <  1:343716/130‑1 (MQ=255)                                              tCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCg                                                                                               >  2:343716/1‑130 (MQ=255)                                              tCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCaaa                                                                                     >  1:506836/1‑140 (MQ=255)                                              tCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCaaa                                                                                     >  1:167045/1‑140 (MQ=255)                                              tCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCaaa                                                                                     >  2:411471/1‑140 (MQ=255)                                              tCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCaaa                                                                                     >  2:305455/1‑140 (MQ=255)                                                    aGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCTAAACTGCaa                                                                               >  2:367609/1‑140 (MQ=255)                                                    aGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCaa                                                                               <  1:110407/140‑1 (MQ=255)                                                    aGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCaa                                                                               <  2:155117/140‑1 (MQ=255)                                                     gCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAg                                                                              >  1:164823/1‑140 (MQ=255)                                                         aCGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCa                                                                          <  1:230634/140‑1 (MQ=255)                                                         aCGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCa                                                                          <  1:488161/140‑1 (MQ=255)                                                          cGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCAt                                                                         <  1:557072/140‑1 (MQ=255)                                                           gCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATc                                                                        <  2:226862/140‑1 (MQ=255)                                                              gAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGc                                                                     <  1:597141/140‑1 (MQ=255)                                                              gAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGc                                                                     <  1:54031/140‑1 (MQ=255)                                                                               aGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCt                                                    <  1:148261/140‑1 (MQ=255)                                                                                  gACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAAc                                                 <  1:411471/140‑1 (MQ=255)                                                                                     tCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACctc                                              <  2:164823/140‑1 (MQ=255)                                                                                          ggTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCAt                                         <  2:167045/140‑1 (MQ=255)                                                                                            tAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTa                                       <  1:764828/140‑1 (MQ=255)                                                                                               ccTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCa                                    >  2:18010/1‑140 (MQ=255)                                                                                                cTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCAt                                   <  2:53725/140‑1 (MQ=255)                                                                                                   aaTCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAAc                                                 <  2:603299/123‑1 (MQ=255)                                                                                                   aaTCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAAc                                                 >  1:603299/1‑123 (MQ=255)                                                                                                    aTCGCCAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGaa                               >  1:280772/1‑140 (MQ=255)                                                                                                        ccAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATg                           <  1:196422/140‑1 (MQ=255)                                                                                                        ccAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATg                           <  1:510886/140‑1 (MQ=255)                                                                                                        ccAGATTTTCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATg                           >  1:112181/1‑140 (MQ=255)                                                                                                             ttttCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGca                      >  2:437695/1‑140 (MQ=255)                                                                                                              tttCCTCTGGCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGcac                     <  2:647755/140‑1 (MQ=255)                                                                                                                 ccTCTGGCCAGTAACTCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATg                           >  2:519006/1‑131 (MQ=255)                                                                                                                 ccTCTGGCCAGTAACTCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATg                           <  1:519006/131‑1 (MQ=255)                                                                                                                       gCCAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTcg            >  1:777350/1‑140 (MQ=255)                                                                                                                        ccAGTAACGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTcgc           <  2:280772/140‑1 (MQ=255)                                                                                                                             aaCGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCTAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACACGAGTTCGCgatga      <  1:367609/140‑1 (MQ=255)                                                                                                                             aaCGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTCGCgatga      <  1:18010/140‑1 (MQ=255)                                                                                                                               cGCAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTCGCGatgatg    >  1:119403/1‑140 (MQ=255)                                                                                                                                 cAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTcgc           <  1:66214/131‑1 (MQ=255)                                                                                                                                 cAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTcgc           >  2:66214/1‑131 (MQ=255)                                                                                                                                 cAATAATGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTCGCGATGATGaa  >  2:402402/1‑140 (MQ=255)                                                                                                                                      |                                                                                                                                       ATAATTATGCGTTTTCGTTGTGATTTTTCACATTGCATTAACGTATCGCGCAGCCAACGCTGAAAACGCGGGCGAATCAGCGACTCAACGGTAACCTGAATCGCCAGATTTTCCTCTGGCCAGTAACGCAATAGTGGAATAAGACGGCTGATTTGCAGACGGTCATACTCTTCCGATAAGCCAAACTGCAAGACCATCGGCATATACTCCGCCGAGCTAACCTCTTCATTACCATCGAAGATGCGGCACATGAGTTCGCGATGATGAA  >  NC_000913/3401789‑3402056

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: ‑