Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,421,933	T→C	V272A (GTC→GCC)	ydaU →	Rac prophage, conserved protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,421,933	0	T	C	100.0%	165.2 / NA	47	V272A (GTC→GCC)	ydaU	Rac prophage, conserved protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (23/24);  total (23/24)

CTGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGTCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACCGCGCCATTCAA  >  NC_000913/1421803‑1422059                                                                                                                                   |                                                                                                                               cTGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTAc                                                                                                                        <  1:1869597/139‑1 (MQ=255)   ggAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCg                                                                                                                      >  1:1799048/1‑139 (MQ=255)   ggAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCg                                                                                                                      >  2:1686346/1‑139 (MQ=255)    gAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCgg                                                                                                                     >  1:1006986/1‑139 (MQ=255)                            tCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCa                                                                                             <  2:756984/139‑1 (MQ=255)                               ccTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAggg                                                                                          <  2:1081425/139‑1 (MQ=255)                                 tGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAggggg                                                                                        >  1:551793/1‑139 (MQ=255)                                      aGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACt                                                                                   <  2:1006986/139‑1 (MQ=255)                                        gTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCa                                                                                             <  2:1126822/127‑1 (MQ=255)                                        gTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCa                                                                                             >  1:1126822/1‑127 (MQ=255)                                        gTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGa                                                                                 <  2:1799048/139‑1 (MQ=255)                                        gTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGa                                                                                 >  2:1384548/1‑139 (MQ=255)                                        gTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGa                                                                                 >  2:591079/1‑139 (MQ=255)                                             tCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATg                                                                            >  2:1856270/1‑139 (MQ=255)                                                    aGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCa                                                                                             >  2:1400975/1‑115 (MQ=255)                                                    aGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCa                                                                                             <  1:1400975/115‑1 (MQ=255)                                                      cATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGcct                                                                                                                              >  2:1012666/1‑80 (MQ=255)                                                      cATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGcct                                                                                                                              <  1:1012666/80‑1 (MQ=255)                                                      cATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGcct                                                                                                                              <  1:1524002/80‑1 (MQ=255)                                                           ccAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGcct                                                                                                                              >  2:1079691/1‑75 (MQ=255)                                                           ccAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGAc                                                              >  1:15321/1‑139 (MQ=255)                                                            cAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACa                                                             <  2:1151572/139‑1 (MQ=255)                                                              aTGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGAcc                                                                               >  2:1354797/1‑119 (MQ=255)                                                              aTGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGAcc                                                                               <  1:1354797/119‑1 (MQ=255)                                                                 aaTACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGa                                                        <  2:1476903/139‑1 (MQ=255)                                                                  aTACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGAt                                                       <  2:1160018/139‑1 (MQ=255)                                                                   tACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATg                                                      <  2:551793/139‑1 (MQ=255)                                                                    aCCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCg                                                         >  1:194676/1‑135 (MQ=255)                                                                    aCCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCg                                                         <  2:194676/135‑1 (MQ=255)                                                                     ccAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGtt                                                    >  1:642767/1‑139 (MQ=255)                                                                         ggCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTGCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTg                                                >  1:1157625/1‑139 (MQ=255)                                                                          gCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGa                                               >  2:1473091/1‑139 (MQ=255)                                                                           cTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGaa                                              >  2:358443/1‑139 (MQ=255)                                                                             tGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACg                                            <  1:1384548/139‑1 (MQ=255)                                                                              gTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGt                                           >  2:1593411/1‑139 (MQ=255)                                                                              gTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGt                                           <  1:1686346/139‑1 (MQ=255)                                                                              gTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGt                                           >  1:1130530/1‑139 (MQ=255)                                                                              gTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGt                                           >  1:104178/1‑139 (MQ=255)                                                                                    gcCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAg                                                                                                   >  2:916660/1‑77 (MQ=255)                                                                                    gcCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAg                                                                                                   <  1:916660/77‑1 (MQ=255)                                                                                             tgtTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGcc                            <  1:1856270/139‑1 (MQ=255)                                                                                              gtTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAg                                                                                                   <  1:1826594/67‑1 (MQ=255)                                                                                              gtTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAg                                                                                                   >  2:1826594/1‑67 (MQ=255)                                                                                                 cGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTGTCCGCAGACTGGCCCCGt                        <  1:1043283/139‑1 (MQ=255)                                                                                                 cGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGt                        <  2:15321/139‑1 (MQ=255)                                                                                                      tGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGaa                                                                          >  1:730461/1‑84 (MQ=255)                                                                                                      tGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGaa                                                                          <  2:730461/84‑1 (MQ=255)                                                                                                              tACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGAt                                                       >  2:267758/1‑95 (MQ=255)                                                                                                              tACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGAt                                                       <  1:267758/95‑1 (MQ=255)                                                                                                               aCTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACcgcg          <  1:591079/139‑1 (MQ=255)                                                                                                                       gggTTAACACCTCCTCGTTACCAGATAGTGCGATCCCGCCAGGCTTCAGGGGGTGACTGACCATGAAAAATATTGCGTCGGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACCGCGCCATTCaa  <  1:4335/138‑1 (MQ=255)                                                                                                                                   |                                                                                                                               CTGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGTCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACCGCGCCATTCAA  >  NC_000913/1421803‑1422059

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑