Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,316,160	G→A	*891* (TAG→TAA)	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,316,160	0	G	A	100.0%	198.2 / NA	61	*891* (TAG→TAA)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (30/31);  total (30/31)

TATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAGCAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGAC  >  NC_000913/2316027‑2316287                                                                                                                                      |                                                                                                                                tATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACa                                                                                                                               >  1:61240/1‑136 (MQ=255) tATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAgg                                                                                                                            >  1:1236228/1‑139 (MQ=255) tATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAgg                                                                                                                            <  1:695667/139‑1 (MQ=255) tATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCAAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAgg                                                                                                                            <  2:1236228/139‑1 (MQ=255)  aTTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGt                                                                                                                           <  2:1113405/139‑1 (MQ=255)  aTTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGt                                                                                                                           <  1:1647352/139‑1 (MQ=255)       ccATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCt                                                                                                                      <  2:279791/139‑1 (MQ=255)                 tCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGaa                                                                                                            <  1:2048541/139‑1 (MQ=255)                     gTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATg                                                                                                              <  1:206308/133‑1 (MQ=255)                     gTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATg                                                                                                              >  2:206308/1‑133 (MQ=255)                     gTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAat                                                                                                        >  1:1388091/1‑139 (MQ=255)                     gTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAat                                                                                                        <  2:2013928/139‑1 (MQ=255)                        cccGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATg                                                                                                     <  2:1388091/139‑1 (MQ=255)                           ggCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTAc                                                                                                                 <  1:1511846/124‑1 (MQ=255)                           ggCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTAc                                                                                                                 >  2:1511846/1‑124 (MQ=255)                           ggCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAata                                                                                                       <  1:727942/134‑1 (MQ=255)                           ggCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAata                                                                                                       >  2:727942/1‑134 (MQ=255)                                       tgtgAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGcc                                                                                      >  1:1489971/1‑139 (MQ=255)                                          gAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGAt                                                                                   <  2:822467/139‑1 (MQ=255)                                              cGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCt                                                                                                                      >  1:2048170/1‑100 (MQ=255)                                              cGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCt                                                                                                                      <  2:2048170/100‑1 (MQ=255)                                              cGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGAcc                                                                               >  1:974602/1‑139 (MQ=255)                                                 tGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCg                                                                                     <  2:1482712/130‑1 (MQ=255)                                                 tGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCg                                                                                     >  1:1482712/1‑130 (MQ=255)                                                   gAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGt                                                                                                                           >  2:775123/1‑90 (MQ=255)                                                   gAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGt                                                                                                                           <  1:775123/90‑1 (MQ=255)                                                   gAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAatat                                                                                                      <  1:1305206/111‑1 (MQ=255)                                                   gAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGCTAGCCTATTACATGAACAatat                                                                                                      >  2:1305206/1‑111 (MQ=255)                                                    aagaTCTGATTCGTGAGAAGGATGTTCCAGGAATATAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACTTAATTATTGCCGATGACCATCCGa                                                                         <  1:1578870/136‑1 (MQ=255)                                                        tCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGt                                                                     >  2:728840/1‑139 (MQ=255)                                                           gATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCtt                                                                  >  2:1690426/1‑139 (MQ=255)                                                                 tGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACg                                                                                                 <  2:1304454/102‑1 (MQ=255)                                                                 tGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACg                                                                                                 >  1:1304454/1‑102 (MQ=255)                                                                   agaAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAg                                                                                                                         >  2:1741427/1‑76 (MQ=255)                                                                   agaAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAg                                                                                                                         <  1:1741427/76‑1 (MQ=255)                                                                        gATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGc                                                     >  2:481935/1‑139 (MQ=255)                                                                          tGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCaa                                                   >  2:991968/1‑139 (MQ=255)                                                                           gTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACaa                                                                                                                              >  2:1032323/1‑63 (MQ=255)                                                                           gTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACaa                                                                                                                              <  1:1032323/63‑1 (MQ=255)                                                                                  gAATAGAAAAATACATCAGCTACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAAc                                                                                                           <  2:979272/75‑1 (MQ=255)                                                                                  gAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAAc                                                                                                           >  1:979272/1‑75 (MQ=255)                                                                                      aGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGtt                                                               >  2:1950964/1‑115 (MQ=255)                                                                                      aGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGtt                                                               <  1:1950964/115‑1 (MQ=255)                                                                                       gAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCaa                                      >  2:1277447/1‑139 (MQ=255)                                                                                             tACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGtt                                                               >  2:1683954/1‑108 (MQ=255)                                                                                             tACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGtt                                                               <  1:1683954/108‑1 (MQ=255)                                                                                               cATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGt                                                                                                                           >  2:267616/1‑46 (MQ=255)                                                                                               cATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGt                                                                                                                           <  1:267616/46‑1 (MQ=255)                                                                                               cATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTg                              <  1:991968/139‑1 (MQ=255)                                                                                                 tCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACa                                                                                                                <  2:9584/55‑1 (MQ=255)                                                                                                 tCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACa                                                                                                                >  1:9584/1‑55 (MQ=255)                                                                                                     cGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAg                                         <  2:1181108/122‑1 (MQ=255)                                                                                                     cGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAg                                         >  1:1181108/1‑122 (MQ=255)                                                                                                       aCATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAAtg                      >  1:832880/1‑139 (MQ=255)                                                                                                       aCATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAAtg                      >  2:1035460/1‑139 (MQ=255)                                                                                                              cAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCgg               <  2:1530419/139‑1 (MQ=255)                                                                                                                gTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCg             <  2:1489971/139‑1 (MQ=255)                                                                                                                         agagCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAg                                >  1:327572/1‑111 (MQ=255)                                                                                                                         agagCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAg                                <  2:327572/111‑1 (MQ=255)                                                                                                                          gagCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGa   <  1:481935/139‑1 (MQ=255)                                                                                                                           agCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGAc  >  1:620718/1‑139 (MQ=255)                                                                                                                                      |                                                                                                                                TATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAGCAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGAC  >  NC_000913/2316027‑2316287

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: ‑