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%	138.6 / NA	42	D70V (GAT→GTT)	PP_0278	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (19/23);  total (19/23)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

AACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑TACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCAGAGA  >  NC_002947/335979‑336265                                                                                                                                                   |                                                                                                                                               aaCCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑tt                                                                                                                                              <  1:302262/148‑2 (MQ=255) aaCCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑tt                                                                                                                                              <  7:75410/148‑2 (MQ=255)   cccATCCCTCAATCTCCTACGCGTAGAACCCGGCGTCCCCGTCGACACGGCCTACGAGCATGTCTCGATACTGATGGGCTACATAAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTACTGGGGGCAGCCGA‑ttacc                                                                                                                                           >  7:215300/1‑145 (MQ=255)    ccATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGTGCGAGGGCGATATGGAGGACGACCATAAATTCCTGCAGGCAGCCGA‑ttacct                                                                                                                                          >  1:119406/1‑144 (MQ=255)    ccATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacct                                                                                                                                          >  1:148597/1‑144 (MQ=255)    ccATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacct                                                                                                                                          >  3:270551/1‑144 (MQ=255)    ccATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacct                                                                                                                                          >  3:265910/1‑144 (MQ=255)         ccTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacct                                                                                                                                          >  6:169963/1‑139 (MQ=255)         ccTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCCCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑ttacct                                                                                                                                          <  5:169963/144‑6 (MQ=255)           tCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGa                                                                                                                                     >  5:38482/1‑148 (MQ=255)             aaTCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACAt                                                                                                                                  >  7:31985/1‑149 (MQ=255)              aTCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATg                                                                                                                                 <  5:45451/149‑1 (MQ=255)                 tcCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCT‑GGGGCAGCCGATTACCTGTGCGACATGGcc                                                                                                                              >  8:120413/1‑148 (MQ=255)                   cTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGc                                                                                                                               <  5:66911/146‑1 (MQ=255)                         gTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCt                                                                                                                     >  7:202697/1‑149 (MQ=255)                                ccGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAAc                                                                                                              <  2:148597/149‑1 (MQ=255)                                ccGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAAc                                                                                                              <  8:249435/149‑1 (MQ=255)                                      tCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATc                                                                                                        <  6:38482/149‑1 (MQ=255)                                        cccGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑gg                                                                                                                         <  3:260362/130‑1 (MQ=255)                                        cccGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑gg                                                                                                                         >  4:260362/1‑130 (MQ=255)                                        cccGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATc                                                                                                        >  6:229556/1‑147 (MQ=255)                                        cccGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCg                                                                                                       <  4:173211/148‑1 (MQ=255)                                         ccGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCaa                                                                                                                            <  8:228854/127‑1 (MQ=255)                                         ccGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCaa                                                                                                                            >  7:228854/1‑127 (MQ=255)                                                 gcgGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCaa                                                                                             <  7:94009/149‑1 (MQ=255)                                                  cgGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAg                                                                                            <  4:265910/149‑1 (MQ=255)                                                  cgGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAg                                                                                            <  4:270551/149‑1 (MQ=255)                                                    gCCTTCGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACTACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGAGATGGCCAA‑GGCGGTGATGAACGATATCg                                                                                                       <  3:193974/136‑1 (MQ=255)                                                    gCCTACGAGCATGTCTAGATCCTGATGGGCTACATCAATCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACATGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCg                                                                                                       >  4:193974/1‑136 (MQ=255)                                                         cGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGTGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAg                                                                                      <  2:119406/148‑1 (MQ=255)                                                                     gATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCa                                                                          <  1:70064/148‑1 (MQ=255)                                                                     gATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCAt                                                                         <  8:202697/149‑1 (MQ=255)                                                                         cTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTa                                                                              >  5:135687/1‑140 (MQ=255)                                                                         cTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTa                                                                              <  6:135687/140‑1 (MQ=255)                                                                                 cTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCAt                                                             >  5:194185/1‑149 (MQ=255)                                                                                 cTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCAt                                                             >  4:172248/1‑149 (MQ=255)                                                                                     aTCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTtgt                                                         >  3:130247/1‑149 (MQ=255)                                                                                        aaGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACATGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAg                                                                             >  3:235785/1‑126 (MQ=255)                                                                                         aGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGa                                                     <  8:31985/149‑1 (MQ=255)                                                                                                               tatGGAGGACGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATggg                               <  4:130247/149‑1 (MQ=255)                                                                                                                   gaggaCGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGc                                                                           >  2:284874/1‑101 (MQ=255)                                                                                                                   gaggaCGACCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGc                                                                           <  1:284874/101‑1 (MQ=255)                                                                                                                       acgacCATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAag                       <  3:172248/149‑1 (MQ=255)                                                                                                                           ccATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGGCGCTGATGAACGATATCGAGATAGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAagcag                    >  1:76152/1‑149 (MQ=39)                                                                                                                           ccATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAgg                                                                                           >  2:70110/1‑77 (MQ=255)                                                                                                                           ccATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAgg                                                                                           <  1:70110/77‑1 (MQ=255)                                                                                                                                     cTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACTATATCGAGATCGCCAAGTGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAAGGGGCTGCAAAGCAGCCCCGGCGAt          <  5:229556/148‑1 (MQ=39)                                                                                                                                     cTGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTTCGTAGCGCATGGGCTGCAAAGCACCCCCGGCGaat         >  8:2650/1‑147 (MQ=255)                                                                                                                                      tGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTTCGTAGGGAATGGGCTGCAAAGCACCCCCGGCGAtt         >  7:195041/1‑148 (MQ=255)                                                                                                                                      tGGGGGCAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGAttt        >  8:108580/1‑149 (MQ=255)                                                                                                                                            cAGCCGATTACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCAgaga  <  7:108580/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                               AACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACCATAAATTCCTGGGGGCAGCCGA‑TACCTGTGCGACATGGCCAA‑GGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCAGAGA  >  NC_002947/335979‑336265

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: ‑