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%	205.9 / NA	57	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 (31/26);  total (31/26)

GCCAGGTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGAGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTAAACC  >  NC_000913/1630852‑1631121                                                                                                                                       |                                                                                                                                        gCCAGGTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAg                                                                                                                                     >  2:653897/1‑139 (MQ=255)               aTCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTa                                                                                                                       >  2:546638/1‑139 (MQ=255)                tCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTAc                                                                                                                      >  1:469129/1‑139 (MQ=255)                 cATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     <  1:546638/139‑1 (MQ=255)                        aGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCt                                                                                                              >  2:465298/1‑139 (MQ=255)                          ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     <  2:784343/130‑1 (MQ=255)                          ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     >  2:402584/1‑130 (MQ=255)                          ggAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     <  1:402584/130‑1 (MQ=255)                          ggAATGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTATGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     >  1:784343/1‑130 (MQ=255)                            aGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                      <  1:166847/111‑1 (MQ=255)                            aGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                      >  2:166847/1‑111 (MQ=255)                            aGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGaa                                                                                                          >  1:1198155/1‑139 (MQ=255)                                tCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGtt                                                                                                      >  1:950643/1‑139 (MQ=255)                                  gCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgc                                                                                                    <  1:465298/139‑1 (MQ=255)                                     tttGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCa                                                                                                 <  2:950643/139‑1 (MQ=255)                                      ttGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAg                                                                                                <  1:611514/139‑1 (MQ=255)                                      ttGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAg                                                                                                <  1:653897/139‑1 (MQ=255)                                                 aaaTTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTacaaca                                                                                     <  2:469129/139‑1 (MQ=255)                                                       tttCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     >  2:9165/1‑101 (MQ=255)                                                       tttCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     <  1:9165/101‑1 (MQ=255)                                                       tttCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGt                                                                               <  1:200096/139‑1 (MQ=255)                                                                           aatataaatatGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTc                                                           <  2:1198155/139‑1 (MQ=255)                                                                                     tGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcg                                                                                                   >  2:922733/1‑89 (MQ=255)                                                                                     tGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTgcg                                                                                                   <  1:922733/89‑1 (MQ=255)                                                                                      ggCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                      >  1:1113081/1‑53 (MQ=255)                                                                                      ggCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                      >  1:148824/1‑53 (MQ=255)                                                                                      ggCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                      <  2:148824/53‑1 (MQ=255)                                                                                      ggCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGaa                                                                                                                                      <  2:1113081/53‑1 (MQ=255)                                                                                       gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTaa                                               >  2:653903/1‑139 (MQ=255)                                                                                       gCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTaa                                               >  1:972387/1‑139 (MQ=255)                                                                                           gCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCg                                                                <  2:505631/118‑1 (MQ=255)                                                                                           gCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCg                                                                >  1:505631/1‑118 (MQ=255)                                                                                           gCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAgc                                                       >  2:54938/1‑127 (MQ=255)                                                                                           gCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAgc                                                       <  1:54938/127‑1 (MQ=255)                                                                                           gCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCa                                           <  1:653903/139‑1 (MQ=255)                                                                                                      tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTc                                                           >  2:709105/1‑112 (MQ=255)                                                                                                      tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTc                                                           >  1:647201/1‑112 (MQ=255)                                                                                                      tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                                >  1:171220/1‑139 (MQ=255)                                                                                                      tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCAc                                >  1:693718/1‑139 (MQ=255)                                                                                                      tGTTATATGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATCAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTc                                                           <  1:709105/112‑1 (MQ=255)                                                                                                      tGTTATATGAATAAAAATCCCCTCTCCGATAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTc                                                           <  2:647201/112‑1 (MQ=255)                                                                                                         tataTGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACctc                             >  1:11170/1‑139 (MQ=255)                                                                                                            atGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTgg                          >  2:690596/1‑139 (MQ=255)                                                                                                             tGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAg                                                        >  2:843295/1‑108 (MQ=255)                                                                                                             tGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAg                                                        <  1:843295/108‑1 (MQ=255)                                                                                                             tGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGc                         <  2:693718/139‑1 (MQ=255)                                                                                                             tGAATAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTCTCACCTCTGGc                         >  1:147770/1‑139 (MQ=255)                                                                                                                 tAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     >  2:20774/1‑43 (MQ=255)                                                                                                                 tAAAAATCCCCTCTCCGGTAAGGGAAGGGATTAAGGGTTTACa                                                                                                                     <  1:20774/43‑1 (MQ=255)                                                                                                                         cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAgcg                                                      <  1:793913/98‑1 (MQ=255)                                                                                                                         cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAgcg                                                      >  2:793913/1‑98 (MQ=255)                                                                                                                         cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACct                              <  1:113787/122‑1 (MQ=255)                                                                                                                         cccTCTCCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACct                              >  2:113787/1‑122 (MQ=255)                                                                                                                            tctcCGGTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCagag          >  1:913486/1‑139 (MQ=255)                                                                                                                                  gTAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTaaa    >  1:961464/1‑139 (MQ=255)                                                                                                                                   tAAGGGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACAcgc                                                                                  <  2:716938/60‑1 (MQ=255)                                                                                                                                   tAAGGGAAGGGATTAAGGGTATACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACAcgc                                                                                  >  1:716938/1‑60 (MQ=255)                                                                                                                                    aagggaagggATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTAAAcc  <  2:913486/139‑1 (MQ=255)                                                                                                                                    aagggaagggATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTAAAcc  <  1:620714/139‑1 (MQ=255)                                                                                                                                    aagggaagggATTAACGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTACAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTAAAcc  <  2:11170/139‑1 (MQ=255)                                                                                                                                       |                                                                                                                                        GCCAGGTTATTAAGATCATAAACAGGGAGTGTCGCTTTTGCTGATAACAAATTATTTCCCATAACAATTCCTTAAATATAAATATGGCAAGCTATATGTTTTGTTATATGAATAAAAATCCCCTCTCCGGTAAGAGAAGGGATTAAGGGTTTACAGACTTCTGGAAGGTTGCGCAGCTCTTACAACACGCGGTTGATCTTCCGCAGCGTCTTCCAGCGCACTTAAATCACGGTCTTTCACCTCTGGCATTTTCAGCGCAGAGATTAAACC  >  NC_000913/1630852‑1631121

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑