Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	336,124:1	+T	100%	coding (209/237 nt)	PP_0278 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	336,124	1	.	T	100.0%	140.1 / NA	43	D70V (GAT→GTT)	PP_0278	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (18/25);  total (18/25)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTTAACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGA‑TACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCAGA  >  NC_002947/335976‑336263                                                                                                                                                       |                                                                                                                                             gTTAACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAAATCCTGGGGGCAGCCGa                                                                                                                                               <  6:157544/149‑1 (MQ=255)     aCCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGA‑ttac                                                                                                                                          <  4:129614/149‑4 (MQ=255)     aCCCATCCCTCAATCTCATAAGCGTAGAGCTCGTCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGTTCGAGGGAGATATGGA‑GGACTACCATAAATTACTGGGGGCAGCCGA‑ttac                                                                                                                                          <  4:273401/149‑4 (MQ=255)      cccATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacc                                                                                                                                         >  6:142101/1‑145 (MQ=255)      cccATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacc                                                                                                                                         <  4:86098/149‑5 (MQ=255)       ccATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacct                                                                                                                                        >  7:140641/1‑144 (MQ=255)             cTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGa                                                                                                                                   >  8:250132/1‑149 (MQ=255)             cTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGACCATGTCTAGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGa                                                                                                                                   >  1:302558/1‑149 (MQ=255)                aaTCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACAt                                                                                                                                >  2:264578/1‑149 (MQ=255)                  tctcCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATgg                                                                                                                              >  3:17257/1‑149 (MQ=255)                           cgTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGgcgc                                                                                                                     <  3:184420/149‑1 (MQ=255)                                 gCCCGGCGTCGCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCt‑gatga                                                                                                              <  8:140641/149‑1 (MQ=255)                                   ccGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAAc                                                                                                            <  3:272681/149‑1 (MQ=255)                                         tCCCCTGCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATc                                                                                                      <  6:263101/149‑1 (MQ=255)                                         tCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATc                                                                                                      <  1:264578/149‑1 (MQ=255)                                              gTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGAt                                                                                                 <  5:142101/149‑1 (MQ=255)                                                     cgtccTACTAGCATGTCGCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATTGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAg                                                                                          <  4:322074/146‑1 (MQ=255)                                                                 aTGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGGACGACAATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCa                                                                               >  1:107167/1‑149 (MQ=255)                                                                  tGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCAt                                                                              >  1:57087/1‑148 (MQ=255)                                                                    tctcGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAg                                                                           <  6:60420/149‑1 (MQ=255)                                                                    tctcGATCCTGATGGGCTACATCAAGCACCTGGTGCGAGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAg                                                                           >  8:328929/1‑149 (MQ=255)                                                                      tcGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAgg                                                                          >  1:345903/1‑148 (MQ=255)                                                                       cGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCa                                                                        >  7:365787/1‑149 (MQ=255)                                                                         aTCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCAtt                                                                      <  7:250132/149‑1 (MQ=255)                                                                           ccTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTg                                                                     <  8:365787/148‑1 (MQ=255)                                                                           ccTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCT‑GGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGAc                                                                   >  2:371549/1‑149 (MQ=255)                                                                            cTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTg                                                                     >  4:68249/1‑147 (MQ=255)                                                                            cTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGAc                                                                   <  2:345903/149‑1 (MQ=255)                                                                             tGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGAcg                                                                  >  1:374988/1‑149 (MQ=255)                                                                                     tACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCAtt                                                          >  1:77133/1‑149 (MQ=255)                                                                                       cctCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCAttt                                                         <  5:166305/146‑1 (MQ=255)                                                                                       cATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAg                                                                           >  2:370392/1‑130 (MQ=255)                                                                                       cATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAg                                                                           <  1:370392/130‑1 (MQ=255)                                                                                       cATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCAttt                                                         <  5:172232/148‑1 (MQ=255)                                                                                        aTCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTtgt                                                       <  2:57087/149‑1 (MQ=255)                                                                                         tCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCT‑GGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTgg                                                     <  1:371549/149‑1 (MQ=255)                                                                                           aaGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTgg                                                     <  2:302558/148‑1 (MQ=255)                                                                                           aaGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTgg                                                     >  2:134431/1‑148 (MQ=255)                                                                                            aGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGa                                                   <  2:77133/149‑1 (MQ=255)                                                                                                    gTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCtt                                           <  7:328929/149‑1 (MQ=255)                                                                                                          gAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTcg                                     <  6:155376/149‑1 (MQ=255)                                                                                                                  tatGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATggg                             <  1:134431/149‑1 (MQ=255)                                                                                                                  tatGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATggg                             >  3:299196/1‑149 (MQ=255)                                                                                                                             gacCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCATGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAagca                   >  3:223396/1‑149 (MQ=255)                                                                                                                                 aTAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGccc               <  2:374988/149‑1 (MQ=255)                                                                                                                                     aTTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGc           <  2:107167/149‑1 (MQ=255)                                                                                                                                              ggCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTAGCGCATGGGCTGCAAATCCGCCCCGGCGATTTAag   >  1:64336/1‑149 (MQ=255)                                                                                                                                              ggCAGCCGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCaga  <  4:17257/149‑1 (MQ=255)                                                                                                                                              ggCAGCAGATTACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCaga  <  4:120651/149‑1 (MQ=255)                                                                                                                                                       |                                                                                                                                             GTTAACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGA‑GGACGACCATAAATTCCTGGGGGCAGCCGA‑TACCTGTGCGACATGGCCAAGGCGCT‑GATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCAGA  >  NC_002947/335976‑336263

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑