Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,463,953	A→T	18.9%	*139C (TGA→TGT)	PP_3956 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,463,953	0	A	T	18.9%	74.1 / 12.6	37	*139C (TGA→TGT)	PP_3956	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (14/15);  new base T (4/3);  total (19/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCGAGGCTGGTGACTACCAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTTCTCGCAGATG  >  NC_002947/4463805‑4464097                                                                                                                                                     |                                                                                                                                                 ccGAGGCTGGTGACTACCAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGa                                                                                                                                                  >  8:88450/1‑149 (MQ=255)   gAGGCTGGTGACTACCAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACg                                                                                                                                                >  1:312194/1‑149 (MQ=255)              cTACCAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGc                                                                                                                                      <  8:290297/148‑1 (MQ=255)               tACCAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGTCCTGCCCTGTCGCCGTCAGGGCAg                                                                                                                                    >  3:7474/1‑149 (MQ=255)               tACCAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGTCCTGCCCTGTCGCCGTCAGGGCAg                                                                                                                                    >  3:11827/1‑149 (MQ=255)                  cAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGTCCTGCCCTGTCGCCGTCAGGGCAgggc                                                                                                                                 <  4:7474/149‑3 (MQ=255)                  cAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGTCCTGCCCTGTCGCCGTCAGGGCAgggc                                                                                                                                 <  4:11827/149‑3 (MQ=255)                  cAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATAGGTTAGGACCGCCGAGCGACCGCATTGCTGCAGTAGACTTCTGGGACTGTCAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTCCCCTGCCGGCGACACGGCAggcc                                                                                                                                 >  8:142069/1‑147 (MQ=255)                      tCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGaa                                                                                                                             <  7:165993/149‑1 (MQ=255)                          cACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATc                                                                                                                           <  3:246968/147‑1 (MQ=255)                          cACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATc                                                                                                                           <  5:50836/147‑1 (MQ=255)                             gACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACtt                                                                                                                      >  3:244443/1‑149 (MQ=255)                                  aCGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGcc                                                                                                                 >  6:216086/1‑149 (MQ=255)                                                      tATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATg                                                                                               >  2:258174/1‑147 (MQ=255)                                                                 aCCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCg                                                                                  <  1:258174/149‑1 (MQ=255)                                                                     ccgAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACt                                                                              >  2:258191/1‑149 (MQ=255)                                                                            aaCGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAg                                                                       >  6:121794/1‑149 (MQ=255)                                                                             aCGCATTGCTGCAGTAGACTTCTGGTCCTTTGAATATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGAGGGCGACAGGGCAGGACCGACTCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAgg                                                                      <  7:142069/149‑1 (MQ=255)                                                                              cacATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGa                                                                     >  6:193662/3‑149 (MQ=255)                                                                                     ctgcAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGc                                                               >  3:227337/1‑148 (MQ=255)                                                                                              aCTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATc                                                     <  4:244443/149‑1 (MQ=255)                                                                                                ttCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGt                                                   >  7:183280/1‑149 (MQ=255)                                                                                                               aaTCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCa                                    <  5:193662/149‑1 (MQ=255)                                                                                                                 tCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCat                                   >  4:211151/1‑148 (MQ=255)                                                                                                                      cTTTTGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCGACCACGTGCAAGTACTGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTc                             <  8:104616/149‑1 (MQ=255)                                                                                                                      cTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTc                             <  2:312194/149‑1 (MQ=255)                                                                                                                          ggACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAg                         >  8:96098/1‑149 (MQ=255)                                                                                                                           gACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAg                         <  4:273037/148‑1 (MQ=255)                                                                                                                                  ggCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGcc                 >  7:68394/1‑149 (MQ=255)                                                                                                                                   gCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGccc                <  7:88450/149‑1 (MQ=255)                                                                                                                                       aCCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCa                                                 <  4:185403/112‑1 (MQ=255)                                                                                                                                       aCCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCa                                                 >  3:185403/1‑112 (MQ=255)                                                                                                                                        ccGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTtc           <  1:258191/149‑1 (MQ=255)                                                                                                                                         ggtcctgccctgTCGCCGTCAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTtct          >  7:245636/4‑149 (MQ=255)                                                                                                                                          gtcctgccctgTCGCCGTCAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTtctc         <  8:245636/147‑1 (MQ=255)                                                                                                                                          gccctgccctGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTtctc         <  8:183280/149‑1 (MQ=255)                                                                                                                                           ccctgccctgACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTTCTCg        >  3:1879/1‑149 (MQ=255)                                                                                                                                                 cctgTCGCCGTCAGGGCAGGGCCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTTCTCGCAGATg  >  4:46500/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                 CCGAGGCTGGTGACTACCAGGTCTGCACGACAGACGGGTGCCAGCCACTGTCCTATTGGTTAGGACCGCCGAGCGAACGCATTGCTGCAGTAGACTTCTGGGCCTGTGAAAATCCGCCTTTGGACAGCAGGCGAACCGCCCTGCCCTGACGGCGACAGGGCAGGACCGAATCCACTTCAGCCCACCACGTGCAAGTAATGCAGGTGGCGTTCGTACTGATCCAGGATGTCGCCAATCACATCGTCACGGCTCCACCCCATGATGTCGTAGTCCTGGCCCCCTTCTCGCAGATG  >  NC_002947/4463805‑4464097

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: ‑