Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	855,796	A→G	intergenic (‑52/‑167)	ldtB ← / → ybiT	L,D‑transpeptidase linking Lpp to murein/ABC‑F family putative regulatory ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	855,796	0	A	G	100.0%	197.4 / NA	56	intergenic (‑52/‑167)	ldtB/ybiT	L,D‑transpeptidase linking Lpp to murein/ABC‑F family putative regulatory ATPase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (25/31);  total (25/31)

ACCGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTATTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATAATGCG  >  NC_000913/855671‑855930                                                                                                                              |                                                                                                                                       aCCGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCAtt                                                                                                                           >  1:1160565/1‑139 (MQ=255)   cGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATtat                                                                                                                         >  2:1335791/1‑139 (MQ=255)   cGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATtat                                                                                                                         >  1:123085/1‑139 (MQ=255)   cGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATtat                                                                                                                         >  1:702862/1‑139 (MQ=255)   cGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATtat                                                                                                                         <  1:174052/139‑1 (MQ=255)        agGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGtt                                                                                                                    >  2:626455/1‑139 (MQ=255)        agGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGtt                                                                                                                    <  1:272838/139‑1 (MQ=255)         ggCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGtt                                                                                                                    <  2:1415249/138‑1 (MQ=255)         ggCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGtt                                                                                                                    >  1:1415249/1‑138 (MQ=255)          gCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCa                                                                                                                  <  1:644542/139‑1 (MQ=255)                 tGCAAAAGCCGAAAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATGTTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGc                                                                                                           >  1:850962/1‑139 (MQ=255)                      aaGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTcaca                                                                                                      <  2:924571/139‑1 (MQ=255)                        gCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                    <  1:1335791/139‑1 (MQ=255)                        gCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                    >  2:128568/1‑139 (MQ=255)                             caacaGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAAt                                                                                               <  2:419861/139‑1 (MQ=255)                                caGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAg                                                                                            <  1:546775/139‑1 (MQ=255)                                   cGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGATATCAGAtg                                                                                         <  1:542667/139‑1 (MQ=255)                                        gCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGAt                                                                                          >  2:1027774/1‑133 (MQ=255)                                        gCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGAt                                                                                          <  1:1027774/133‑1 (MQ=255)                                        gCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTAc                                                                                    >  1:680309/1‑139 (MQ=255)                                           gCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGaa                                                                                 >  1:1160095/1‑139 (MQ=255)                                             tGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCt                                                                                                          <  1:1145419/112‑1 (MQ=255)                                             tGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCt                                                                                                          >  2:1145419/1‑112 (MQ=255)                                                         tttCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAg                                                                                                                                 <  1:683542/77‑1 (MQ=255)                                                         tttCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAg                                                                                                                                 >  2:683542/1‑77 (MQ=255)                                                         tttCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGc                                                                   >  1:1121257/1‑139 (MQ=255)                                                          ttCAATTTCATATTCATGTTAAGCGAGATTGTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGcc                                                                  <  2:1160565/139‑1 (MQ=255)                                                           tCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCt                                                                                                          <  2:82060/98‑1 (MQ=255)                                                           tCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCt                                                                                                          >  1:82060/1‑98 (MQ=255)                                                                  cATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCt                                                                 >  2:809543/1‑132 (MQ=255)                                                                  cATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCt                                                                 <  1:809543/132‑1 (MQ=255)                                                                  cATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCtt                                                          <  2:850962/139‑1 (MQ=255)                                                                         aTGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCtt                                                          >  1:1356577/1‑132 (MQ=255)                                                                         aTGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCtt                                                          <  2:1356577/132‑1 (MQ=255)                                                                             tAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATtat                                                                                                                         >  2:681940/1‑65 (MQ=255)                                                                             tAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATtat                                                                                                                         <  1:681940/65‑1 (MQ=255)                                                                               aGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAg                                                                                                                      >  1:380877/1‑66 (MQ=255)                                                                               aGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAg                                                                                                                      <  2:380877/66‑1 (MQ=255)                                                                                     aTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCtt                                                          <  1:335345/120‑1 (MQ=255)                                                                                     aTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCtt                                                          >  2:335345/1‑120 (MQ=255)                                                                                     aTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCga                                       <  2:653093/139‑1 (MQ=255)                                                                                            gCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAg                                <  1:128568/139‑1 (MQ=255)                                                                                               tGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGAt                             >  1:699705/1‑139 (MQ=255)                                                                                                ggCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGAtc                            <  1:1011859/139‑1 (MQ=255)                                                                                                 gCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                    >  1:1059314/1‑66 (MQ=255)                                                                                                 gCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                    <  2:1059314/66‑1 (MQ=255)                                                                                                         ttGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAg                   <  2:123085/139‑1 (MQ=255)                                                                                                         ttGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAg                   <  1:729788/139‑1 (MQ=255)                                                                                                          tGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGa                  >  2:77293/1‑139 (MQ=255)                                                                                                           gggTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGAc                 <  1:438652/139‑1 (MQ=255)                                                                                                                      atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTa                                                   <  2:1468125/94‑1 (MQ=255)                                                                                                                      atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTa                                                   >  1:1468125/1‑94 (MQ=255)                                                                                                                      atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCttt                      <  2:238427/123‑1 (MQ=255)                                                                                                                      atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCttt                      >  1:238427/1‑123 (MQ=255)                                                                                                                          gagTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATAATgcg  <  2:1121257/139‑1 (MQ=255)                                                                                                                          gagTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATAATgcg  <  2:702862/139‑1 (MQ=255)                                                                                                                              |                                                                                                                                       ACCGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTATTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATAATGCG  >  NC_000913/855671‑855930

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: ‑