Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,630,986	A→G	intergenic (‑73/+16)	ydfI ← / ← ydfJ	putative NAD‑dependent D‑mannonate oxidoreductase/pseudogene, MFS transporter family, interrupted by Qin prophage,Phage or Prophage Related, putative transport protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,630,986	0	A	G	100.0%	233.5 / NA	63	intergenic (‑73/+16)	ydfI/ydfJ	putative NAD‑dependent D‑mannonate oxidoreductase/pseudogene, MFS transporter family, interrupted by Qin prophage,Phage or Prophage Related, putative transport protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (35/28);  total (35/28)

GTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGAGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTAA  >  NC_000913/1630857‑1631118                                                                                                                                  |                                                                                                                                     gTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGAtt                                                                                                                             >  1:933351/1‑139 (MQ=255)            cATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   <  1:344964/122‑1 (MQ=255)            cATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   >  2:344964/1‑122 (MQ=255)                     ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTgg                                                                                                         >  2:85601/1‑139 (MQ=255)                     ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTgg                                                                                                         >  1:401419/1‑139 (MQ=255)                     ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTgg                                                                                                         >  2:1724065/1‑139 (MQ=255)                     ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTgg                                                                                                         >  1:135057/1‑139 (MQ=255)                       aGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGaa                                                                                                       >  1:444419/1‑139 (MQ=255)                       aGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGaa                                                                                                       >  2:1452916/1‑139 (MQ=255)                         tgtCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAgg                                                                                                     >  2:651451/1‑139 (MQ=255)                          gtCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAgg                                                                                                                         <  1:128953/118‑1 (MQ=255)                          gtCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAgg                                                                                                                         >  2:128953/1‑118 (MQ=255)                                tttGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCa                                                                                              <  2:140494/139‑1 (MQ=255)                                         aaCAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                  >  2:842469/1‑110 (MQ=255)                                         aaCAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                  <  1:842469/110‑1 (MQ=255)                                         aaCAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCa                                                                                              >  2:691038/1‑130 (MQ=255)                                         aaCAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCa                                                                                              <  1:691038/130‑1 (MQ=255)                                              attattTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   <  2:1214971/88‑1 (MQ=255)                                              attattTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   >  1:1214971/1‑88 (MQ=255)                                                               ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   <  2:435666/71‑1 (MQ=255)                                                               ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   >  1:435666/1‑71 (MQ=255)                                                                tCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcgc                                                                                               <  1:986746/106‑1 (MQ=255)                                                                tCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcgc                                                                                               >  2:986746/1‑106 (MQ=255)                                                                          taaatatGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAgc                                                    <  2:401419/139‑1 (MQ=255)                                                                               atGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACt                                               <  1:1452916/139‑1 (MQ=255)                                                                                tGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAg                                                                                                                          <  2:341984/63‑1 (MQ=255)                                                                                tGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAg                                                                                                                          >  1:341984/1‑63 (MQ=255)                                                                                  gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   <  2:1280262/52‑1 (MQ=255)                                                                                  gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                   >  1:1280262/1‑52 (MQ=255)                                                                                  gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGctc                                                                                          <  1:111340/93‑1 (MQ=255)                                                                                  gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGctc                                                                                          >  2:111340/1‑93 (MQ=255)                                                                                       cTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                       <  1:85601/139‑1 (MQ=255)                                                                                                ttGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCa                              >  1:526368/1‑139 (MQ=255)                                                                                                ttGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCa                              >  1:40872/1‑139 (MQ=255)                                                                                                 tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGTTTGATCTTCCGAAGCGTCTTCCAGCGCACTTAAATCACGGTCCTTCAc                             >  2:953949/1‑139 (MQ=255)                                                                                                 tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                             >  1:950018/1‑139 (MQ=255)                                                                                                 tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                             >  2:1306416/1‑139 (MQ=255)                                                                                                 tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                             >  1:1327576/1‑139 (MQ=255)                                                                                                    tataTGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCttt                                >  2:665018/1‑133 (MQ=255)                                                                                                    tataTGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCttt                                <  1:665018/133‑1 (MQ=255)                                                                                                    tataTGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCATCTTCCAGCGCACTTAAATCACGGTCTTTCACctc                          >  1:1048424/1‑139 (MQ=255)                                                                                                        tGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGc                      <  1:398351/139‑1 (MQ=255)                                                                                                           aTAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                             <  2:640059/129‑1 (MQ=255)                                                                                                           aTAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                             >  1:640059/1‑129 (MQ=255)                                                                                                            tAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACACGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCAttt                  >  1:392575/1‑139 (MQ=255)                                                                                                             aaaaaTCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCAtttt                 <  2:444419/139‑1 (MQ=255)                                                                                                                  tCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAgcg            >  1:1065817/1‑139 (MQ=255)                                                                                                                    cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGt                                                                            <  1:735007/73‑1 (MQ=255)                                                                                                                    cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGt                                                                            >  2:735007/1‑73 (MQ=255)                                                                                                                    cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCa          <  1:1724065/139‑1 (MQ=255)                                                                                                                    cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCa          <  2:135057/139‑1 (MQ=255)                                                                                                                       tctcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTc                                                           >  1:640309/1‑87 (MQ=255)                                                                                                                       tctcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTc                                                           <  2:640309/87‑1 (MQ=255)                                                                                                                       tctcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTc                               >  2:1255237/1‑115 (MQ=255)                                                                                                                       tctcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTc                               <  1:1255237/115‑1 (MQ=255)                                                                                                                        ctcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAgaga      <  2:40872/139‑1 (MQ=255)                                                                                                                         tcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcgc                                                                                               <  2:435467/49‑1 (MQ=255)                                                                                                                         tcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcgc                                                                                               >  1:435467/1‑49 (MQ=255)                                                                                                                            ggTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTaa  <  1:1306416/139‑1 (MQ=255)                                                                                                                             gTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACct                           <  2:1594353/113‑1 (MQ=255)                                                                                                                             gTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACct                           >  1:1594353/1‑113 (MQ=255)                                                                                                                              tAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcg                                                                                                <  1:291034/43‑1 (MQ=255)                                                                                                                              tAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcg                                                                                                >  2:291034/1‑43 (MQ=255)                                                                                                                               aagggaagggATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTa                                                                                       >  1:904785/1‑51 (MQ=255)                                                                                                                                  |                                                                                                                                     GTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGAGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTAA  >  NC_000913/1630857‑1631118

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑