Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,397,595	T→C	9.5%	H421R (CAC→CGC)	PP_3877 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,397,595	0	T	C	9.5%	112.3 / 3.2	42	H421R (CAC→CGC)	PP_3877	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (22/16);  new base C (2/2);  total (24/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.23e-01

TTATCAAAAGTAACAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGATGACCATGGCATCGTCTTCGCCGATG  >  NC_002947/4397462‑4397735                                                                                                                                       |                                                                                                                                             ttATCAAAATTAACTATGTCCTTTGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAg                                                                                                                                <  7:45855/148‑1 (MQ=255) ttATCAAAAGTAACAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAg                                                                                                                                <  1:303217/148‑1 (MQ=255)    tCAAAAGTAACAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGaa                                                                                                                                 >  8:266292/1‑144 (MQ=255)    tCAAAAGTAACAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGaa                                                                                                                                 <  7:266292/144‑1 (MQ=255)    tCAAAAGTAACAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGt                                                                                                                            >  8:11019/1‑149 (MQ=255)    tCAAAAGTAACAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGt                                                                                                                            >  5:258550/1‑149 (MQ=255)             aCAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGa                                                                                                                   >  8:25676/1‑149 (MQ=255)             aCAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGa                                                                                                                   <  5:36184/149‑1 (MQ=255)                aTGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTa                                                                                                                >  8:138838/1‑149 (MQ=255)                 tGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTAc                                                                                                               >  1:57848/1‑149 (MQ=255)                              ggggTGCTCCCGGAGATTGGTAAGGATGGGCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGAAATC‑GGTAATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGt                                                                                                   <  8:10121/148‑1 (MQ=255)                                 gTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGa                                                                                               <  7:138838/149‑1 (MQ=255)                                       ccGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACAGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACga                                                                                         >  6:164139/1‑148 (MQ=255)                                         ggAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTg                                                                                       <  1:234608/149‑1 (MQ=255)                                                      gATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCtgatg                                                                          <  7:11019/149‑1 (MQ=255)                                                       aTGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCtgatga                                                                         >  4:172319/1‑149 (MQ=255)                                                        gggCCCGGCTTACCGGGCTTACTGCGTTACAGTGAGCTACCATATTTGCTACCAGGTCATCACCGCGACCCATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCtgatg                                                                          <  1:103894/147‑1 (MQ=255)                                                              ggCGTACCGGGCGTACTGCGTTACAGGGATCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGcc                                                                  <  8:133813/149‑1 (MQ=255)                                                                     cGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCg                                                           >  2:210754/1‑149 (MQ=255)                                                                            aCTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCTCAGCCGTCGTTg                                                     >  1:272781/1‑148 (MQ=255)                                                                            aCTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTg                                                     >  2:246761/1‑148 (MQ=255)                                                                             cTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTg                                                     >  3:169382/1‑147 (MQ=255)                                                                              tGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGCGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAg                                                  >  3:113939/1‑149 (MQ=255)                                                                              tGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGCGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAg                                                  >  3:118486/1‑149 (MQ=255)                                                                                cGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGt                                                >  1:8049/1‑149 (MQ=255)                                                                                 gTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGtt                                               <  4:169382/149‑1 (MQ=255)                                                                                  ttACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTg                                              >  1:300461/1‑149 (MQ=255)                                                                                        ggAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCt                                        >  4:19169/1‑149 (MQ=255)                                                                                         gAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCtt                                       <  2:300461/149‑1 (MQ=255)                                                                                            cTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCt                                    <  1:210754/149‑1 (MQ=255)                                                                                              aCCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGCCCGAAGTCGTGCTTGGCGATTAACCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGACGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTg                                   >  3:26330/1‑148 (MQ=255)                                                                                                  cATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATc                              >  5:174975/1‑149 (MQ=255)                                                                                                      tGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGAt                           <  7:25676/148‑1 (MQ=255)                                                                                                      tGACATC‑GGTCATCACCGCGACCGATTCGACGCGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGAt                           <  4:118486/148‑1 (MQ=255)                                                                                                      tGACATC‑GGTCATCACCGCGACCGATTCGACGCGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGAt                           <  4:113939/148‑1 (MQ=255)                                                                                                      tGAAATC‑GTGCATCACCGCGACCGATTAGACGTGGCGAGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGAt                           <  4:26330/148‑1 (MQ=255)                                                                                                           tC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGATGACCAt                     >  6:80862/1‑149 (MQ=255)                                                                                                              ggTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGATGACCATgg                   >  3:79100/1‑149 (MQ=255)                                                                                                                      ccGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGAt                           >  2:272276/1‑133 (MQ=255)                                                                                                                       cgcgACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGAc                                                                        >  6:135079/1‑87 (MQ=255)                                                                                                                       cgcgACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGAc                                                                        <  5:135079/87‑1 (MQ=255)                                                                                                                                 tCGACGTGGCGCGGCCCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGATGACCATGGCATCGTCTTCGCCGATg  >  4:112265/1‑147 (MQ=255)                                                                                                                                       |                                                                                                                                             TTATCAAAAGTAACAATGACCTTGGTCATGGGGTGCTCCCGGAGATTGGAAAGGATGGCCCGGCGTACCGGGCGTACTGCGTTACAGGGAGCTACCCCATTTGACATC‑GGTCATCACCGCGACCGATTCGACGTGGCGCGGACCGAAGTCGTGCTTGGCGATTACCCGGACCAGGGTCTGATCACGCTGGAATGCGCTGATGACGTTGCCGCTGCCGTCTTTGTAGGTTGCTTCCTTGCTGAAATCGATGACCATGGCATCGTCTTCGCCGATG  >  NC_002947/4397462‑4397735

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: ‑