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%	256.6 / NA	71	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 (38/33);  total (38/33)

AGCCAGGTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGAGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATT  >  NC_000913/1630851‑1631116                                                                                                                                        |                                                                                                                                   aGCCAGGTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                 <  2:1136029/139‑1 (MQ=255)                aTCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                 >  1:165524/1‑124 (MQ=255)                aTCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                 <  2:165524/124‑1 (MQ=255)                aTCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTa                                                                                                                  >  1:1582442/1‑139 (MQ=255)                  cATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                <  2:645292/139‑1 (MQ=255)                          gggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                 >  2:559489/1‑114 (MQ=255)                          gggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                 <  1:559489/114‑1 (MQ=255)                           ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGAtt                                                                                                                           <  2:434517/119‑1 (MQ=255)                           ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGAtt                                                                                                                           >  1:434517/1‑119 (MQ=255)                           ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTgg                                                                                                       >  1:1457816/1‑139 (MQ=255)                            gAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGa                                                                                                      >  1:643429/1‑139 (MQ=255)                                 tCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAg                                                                                                               <  2:1151135/125‑1 (MQ=255)                                 tCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAg                                                                                                               >  1:1151135/1‑125 (MQ=255)                                 tCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGtt                                                                                                 >  1:1507789/1‑139 (MQ=255)                                     ttttGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcgc                                                                                             <  2:1457816/139‑1 (MQ=255)                                                                     ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                <  1:800914/88‑1 (MQ=255)                                                                     ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                >  1:594432/1‑88 (MQ=255)                                                                     ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                <  2:594432/88‑1 (MQ=255)                                                                     ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                >  2:800914/1‑88 (MQ=255)                                                                     ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCa                                                              <  1:640850/138‑1 (MQ=255)                                                                     ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCa                                                              >  2:640850/1‑138 (MQ=255)                                                                     ttCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAg                                                             >  1:700280/1‑139 (MQ=255)                                                                      tCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGc                                                            >  2:452967/1‑139 (MQ=255)                                                                           aaatataaatatGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCg                                                           >  2:1064189/1‑135 (MQ=255)                                                                           aaatataaatatGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCg                                                           <  1:1064189/135‑1 (MQ=255)                                                                                taaatatGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAgc                                                  <  2:1582442/139‑1 (MQ=255)                                                                                  aatatGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                 <  2:1309678/58‑1 (MQ=255)                                                                                  aatatGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                 >  1:1309678/1‑58 (MQ=255)                                                                                       ggCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAg                                                   <  2:1640568/131‑1 (MQ=255)                                                                                       ggCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAg                                                   >  1:1640568/1‑131 (MQ=255)                                                                                       ggCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTa                                           >  1:1246405/1‑139 (MQ=255)                                                                                        gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTacaaca                                                                                >  2:400163/1‑101 (MQ=255)                                                                                        gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTacaaca                                                                                <  1:400163/101‑1 (MQ=255)                                                                                         cAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcg                                                                                              <  1:680776/86‑1 (MQ=255)                                                                                         cAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcg                                                                                              >  2:680776/1‑86 (MQ=255)                                                                                             cTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                     <  2:1246405/139‑1 (MQ=255)                                                                                               atatGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACgg                                   <  2:700280/139‑1 (MQ=255)                                                                                                       tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAg                                                                                           <  1:125665/75‑1 (MQ=255)                                                                                                       tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAg                                                                                           >  2:125665/1‑75 (MQ=255)                                                                                                       tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                           >  1:607330/1‑139 (MQ=255)                                                                                                       tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                           >  2:1155469/1‑139 (MQ=255)                                                                                                        gTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                     >  1:976927/1‑128 (MQ=255)                                                                                                        gTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                     <  2:976927/128‑1 (MQ=255)                                                                                                        gTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAcc                          >  1:90197/1‑139 (MQ=255)                                                                                                         ttATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACct                         <  2:794708/139‑1 (MQ=255)                                                                                                          tataTGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGct                                                                                         >  2:485657/1‑74 (MQ=255)                                                                                                          tataTGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGct                                                                                         <  1:485657/74‑1 (MQ=255)                                                                                                              tGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAACTCACGGTCTTTCACCTCTGGc                    >  2:840034/1‑139 (MQ=255)                                                                                                                aaTAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTg                                                                                                        >  2:680087/1‑53 (MQ=255)                                                                                                                aaTAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTg                                                                                                        <  1:680087/53‑1 (MQ=255)                                                                                                                aaTAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCAt                  >  1:1476855/1‑139 (MQ=255)                                                                                                                   aaaaaTCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAg                                                                                                    >  2:1384344/1‑54 (MQ=255)                                                                                                                   aaaaaTCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAg                                                                                                    <  1:1384344/54‑1 (MQ=255)                                                                                                                   aaaaaTCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                     >  2:1002141/1‑117 (MQ=255)                                                                                                                   aaaaaTCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                     <  1:1002141/117‑1 (MQ=255)                                                                                                                        tCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTacaac                                                                                 >  2:438146/1‑68 (MQ=255)                                                                                                                        tCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTacaac                                                                                 <  1:438146/68‑1 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAATGTTGCGCAGCTCTTACAACACGCGGTTg                                                                        <  1:753527/75‑1 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTg                                                                        >  2:753527/1‑75 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                     >  2:1050750/1‑110 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCAc                                     <  1:1050750/110‑1 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCa        >  2:1473498/1‑139 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCa        <  2:1476855/139‑1 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCa        <  1:257889/139‑1 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCa        <  1:1473498/139‑1 (MQ=255)                                                                                                                          cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCa        >  2:881261/1‑139 (MQ=255)                                                                                                                                ccGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGAtt  >  1:1271370/1‑139 (MQ=255)                                                                                                                                 cGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACtt                                            >  2:259088/1‑96 (MQ=255)                                                                                                                                 cGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACtt                                            <  1:259088/96‑1 (MQ=255)                                                                                                                                    tAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcgc                                                                                             <  2:119075/44‑1 (MQ=255)                                                                                                                                    tAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcgc                                                                                             >  1:119075/1‑44 (MQ=255)                                                                                                                                        |                                                                                                                                   AGCCAGGTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGAGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATT  >  NC_000913/1630851‑1631116

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑