Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	456,497	(T)8→7	intergenic (+66/‑180)	tig → / → clpP	peptidyl‑prolyl cis/trans isomerase (trigger factor)/proteolytic subunit of ClpA‑ClpP and ClpX‑ClpP ATP‑dependent serine proteases

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	456,490	0	T	.	100.0%	177.6 / NA	43	intergenic (+59/‑187)	tig/clpP	peptidyl‑prolyl cis/trans isomerase (trigger factor)/proteolytic subunit of ClpA‑ClpP and ClpX‑ClpP ATP‑dependent serine proteases
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (16/27);  total (16/27)

TGAAGCTGTACTGGCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGCTTTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAGGGACTAGCTGATAATCC  >  NC_000913/456356‑456619                                                                                                                                       |                                                                                                                                  tGAAGCTGTACTGGCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGCttttt                                                                                                                               >  1:761292/1‑139 (MQ=255)          aCTGGCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGa                                                                                                                     >  2:773926/1‑139 (MQ=255)          aCTGGCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGa                                                                                                                     >  1:561684/1‑139 (MQ=255)          aCTGGCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACAAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGa                                                                                                                     >  2:312716/1‑139 (MQ=255)             ggCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAtt                                                                                                                  <  1:118047/139‑1 (MQ=255)             ggCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAtt                                                                                                                  <  2:961869/139‑1 (MQ=255)             ggCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAtt                                                                                                                  <  2:702271/139‑1 (MQ=255)             ggCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAtt                                                                                                                  <  2:423328/139‑1 (MQ=255)             ggCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAtt                                                                                                                  <  1:773926/139‑1 (MQ=255)              gcgaaagcgaaaGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAttt                                                                                                                 >  2:375759/1‑139 (MQ=255)                   agcgaaagTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCAt                                                                                                            >  1:192399/1‑139 (MQ=255)                   agcgaaagTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCAt                                                                                                            >  1:127203/1‑139 (MQ=255)                        aagTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAAc                                                                                                       <  2:391285/139‑1 (MQ=255)                                 aaaaaGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAtt                                                                                                                  >  1:464081/1‑119 (MQ=255)                                 aaaaaGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAAtt                                                                                                                  <  2:464081/119‑1 (MQ=255)                                     aGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGcc                                                                                          <  2:127203/139‑1 (MQ=255)                                           cACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCct                                                                                         >  2:537750/1‑134 (MQ=255)                                           cACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCct                                                                                         <  1:537750/134‑1 (MQ=255)                                                 cAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGtt                                                                              >  2:814084/1‑139 (MQ=255)                                                        cTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCTTCTTTCGGTGTTAGCGTaa                                                                       <  1:748581/139‑1 (MQ=255)                                                             gaACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAacaaca                                                                  <  2:824101/139‑1 (MQ=255)                                                                ccAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACaaaa                                                               <  1:312716/139‑1 (MQ=255)                                                                    cagGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGc                                                                                           >  1:1087259/1‑107 (MQ=255)                                                                    cagGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTGTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGc                                                                                           <  2:1087259/107‑1 (MQ=255)                                                                     agGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTg                                                          >  1:132795/1‑139 (MQ=255)                                                                      ggCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGt                                                         <  2:132795/139‑1 (MQ=255)                                                                      ggCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGt                                                         <  2:192399/139‑1 (MQ=255)                                                                       gCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGtt                                                        <  1:320880/139‑1 (MQ=255)                                                                                       aTAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑‑TTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTg                                       >  1:543964/1‑139 (MQ=255)                                                                                        tAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTg                                       <  2:679748/139‑1 (MQ=255)                                                                                             cgcTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGcc                                  <  2:1104898/139‑1 (MQ=255)                                                                                             cgcTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGcc                                  <  2:561684/139‑1 (MQ=255)                                                                                             cgcTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGcc                                  <  1:731694/139‑1 (MQ=255)                                                                                                            aaGGCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAg                   >  1:378319/1‑139 (MQ=255)                                                                                                              ggCCCGTCACCGCCAGGTGGTGGGC‑‑TTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAGGGa                <  2:543964/139‑1 (MQ=255)                                                                                                               gCCCGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAGGGa                <  1:375759/139‑1 (MQ=255)                                                                                                                 gcctCACCGCCAGGTGGTTGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAGGGACt              <  1:289724/136‑1 (MQ=255)                                                                                                                 ccGTCACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAGGGACt              <  1:202780/139‑1 (MQ=255)                                                                                                                     cACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAg                                                                            <  2:680723/73‑1 (MQ=255)                                                                                                                     cACCGCCAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAg                                                                            >  1:680723/1‑73 (MQ=255)                                                                                                                           cAGGTGGTGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAGGGACTAGCTGATAAt    <  2:378319/139‑1 (MQ=255)                                                                                                                             ggtggtGGGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAAAAGGTTGATGCGGTACCCATAACACAGGGACTAGCTGATAATcc  >  2:289724/1‑139 (MQ=255)                                                                                                                                  tggGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTg                                       >  2:725400/1‑97 (MQ=255)                                                                                                                                  tggGC‑TTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTg                                       <  1:725400/97‑1 (MQ=255)                                                                                                                                       |                                                                                                                                  TGAAGCTGTACTGGCGAAAGCGAAAGTGACTGAAAAAGAAACCACTTTCAACGAGCTGATGAACCAGCAGGCGTAATTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGGCTTTTTTTTGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATGCTTGAAATATGGTGATGCCGTACCCATAACACAGGGACTAGCTGATAATCC  >  NC_000913/456356‑456619

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑