Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,763,089	T→A	12.5%	V111D (GTC→GAC)	PP_3326 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,763,089	0	T	A	12.5%	102.2 / 6.8	40	V111D (GTC→GAC)	PP_3326	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (17/18);  new base A (3/2);  total (20/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01

ATGATCCCGGTCACGGTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCTGAGCGACCCTCTGCAAGTCGGGCCAGG  >  NC_002947/3762944‑3763224                                                                                                                                                  |                                                                                                                                        aTGATCCCGGTCACGGTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCaa                                                                                                                                      <  1:25145/149‑1 (MQ=255)   gATCCCGGTCACGGTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAg                                                                                                                                     >  2:94197/1‑148 (MQ=255)       ccGGTCACGGTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGTTCAATCAGGATCGCACCCATGTCAAGGATGc                                                                                                                                <  6:96386/149‑1 (MQ=255)           tCACGGTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCATCCTTGACATGGGTGCGATc                                                                                                                            >  4:231736/1‑149 (MQ=255)             aCGGTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCATCCTTGACATGGGTGCGATcct                                                                                                                          <  3:231736/149‑3 (MQ=255)               ggTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCt                                                                                                                        >  4:184174/1‑149 (MQ=255)                 tCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGGCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTcc                                                                                                                      <  7:141176/149‑1 (MQ=255)                         cTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAg                                                                                                              <  3:184174/149‑1 (MQ=255)                              ggATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGa                                                                                                         <  1:94197/149‑1 (MQ=255)                                aTCATGCCGTGCTTCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGaaa                                                                                                       <  5:303467/149‑1 (MQ=255)                                    tGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACa                                                                                                   <  8:62941/149‑1 (MQ=255)                                    tGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACa                                                                                                   <  7:232097/149‑1 (MQ=255)                                    tGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACa                                                                                                   >  3:9830/1‑149 (MQ=255)                                          gctgcAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCATCCTTGACATGGGTGCGATcctgat                                                                                                                       >  3:315645/1‑118 (MQ=38)                                          gctgcAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCATCCTTGACATGGGTGCGATcctgat                                                                                                                       <  4:315645/123‑6 (MQ=38)                                           ctgcAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTgg                                                                                             <  8:297518/148‑1 (MQ=255)                                               aaCCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATc                                                                                        >  8:111744/1‑149 (MQ=255)                                               aaCCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATc                                                                                        >  2:184954/1‑149 (MQ=255)                                                  cACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTAc                                                                                     >  2:238666/1‑149 (MQ=255)                                                   aCTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGTGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTAc                                                                                     >  2:17486/1‑148 (MQ=255)                                                        ccccGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGTCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGc                                                                               <  7:111744/149‑1 (MQ=255)                                                                 cGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGc                                                                      <  2:162770/149‑1 (MQ=255)                                                                      cTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGcc                                                                 >  3:100008/1‑149 (MQ=255)                                                                           cGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTg                                                                           <  8:302105/134‑1 (MQ=255)                                                                           cGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTg                                                                           >  7:302105/1‑134 (MQ=255)                                                                                        aaCGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGa                                                                                                         <  3:146101/91‑1 (MQ=255)                                                                                        aaCGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGa                                                                                                         >  4:146101/1‑91 (MQ=255)                                                                                        aaCGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCg                                               >  1:176993/1‑149 (MQ=255)                                                                                           gggCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGttt                                            >  8:175439/1‑149 (MQ=255)                                                                                            ggCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTg                                           <  4:9830/149‑1 (MQ=255)                                                                                             gCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTgg                                          >  3:221968/1‑149 (MQ=255)                                                                                                          cgcCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCt                             <  4:221968/149‑1 (MQ=255)                                                                                                             ccGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTcgagtgag                          >  1:115047/1‑142 (MQ=255)                                                                                                                 aCAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCTGAGCGAc                      >  1:280412/1‑149 (MQ=255)                                                                                                                       aaTGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCTGAGCGACCCTCTg                <  7:175439/149‑1 (MQ=255)                                                                                                                       aaTGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCTGAGCGACCCTCTg                <  2:176993/149‑1 (MQ=255)                                                                                                                            gTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCTGAGCGACCCTCTGCattg           >  7:45232/1‑146 (MQ=255)                                                                                                                                      aTCGCATCCTTGACATGGGTGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCTGAGCGACCCTCTGCAAGTCGGGCCAgg  >  2:305717/1‑148 (MQ=255)                                                                                                                                           acacATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACAtg                                                    >  5:244724/4‑93 (MQ=255)                                                                                                                                           aCCCATGTCAAGTATTCGATCGCCTCCACCCACAGCTTGAATTACAGGCTGTCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACAtg                                                    <  6:244724/93‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                        ATGATCCCGGTCACGGTCGAGCGCCTGGCGGATCATGCCGTGCTGCAACCACTTACCCCGCCTGCGGCACTTGCCGTGCTGCTGGACAACGGGCCTTGGTCACAGCGCCCGGACAAGCAATGGGTCAATCAGGATCGCACCCATGTCAAGGATGCGATCGCCTCCACCCACAGCTTGAAATACAGCCTGGCGATCTACCAGAGCGGTGCACGCCTGCCGAAACTGGACATGCTGCGTTTGGCGATCGTTCCCCTGAGCGACCCTCTGCAAGTCGGGCCAGG  >  NC_002947/3762944‑3763224

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑