Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,607,848	G→A	9.7%	intergenic (‑315/+29)	PP_1408 ← / ← rsuA	(R)‑3‑hydroxydecanoyl‑ACP:CoA transacylase/16S rRNA pseudouridine(516) synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,607,848	0	G	A	9.7%	110.2 / 2.7	41	intergenic (‑315/+29)	PP_1408/rsuA	(R)‑3‑hydroxydecanoyl‑ACP:CoA transacylase/16S rRNA pseudouridine(516) synthase
Reads supporting (aligned to +/- strand):  ref base G (18/19);  new base A (2/2);  total (20/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.76e-01

CTTTGGGTGGCCGGCAAAAAGTGTCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGCCCCCATGCTCTCCCGATGCAGCCCGATCACCTTGTTGTTGAA  >  NC_002947/1607704‑1607993                                                                                                                                                 |                                                                                                                                                  cTTTGGGTGGCCTGCAAAAAGTGTCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATg                                                                                                                                               <  5:111975/149‑1 (MQ=255)    tGGTTGGCCGGCAAAAAGTGTCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATga                                                                                                                                              <  7:143180/147‑1 (MQ=255)               cAAAAAGTGTCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGctgt                                                                                                                                 >  3:276078/1‑149 (MQ=255)                aaaaaGTGTCGTCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTa                                                                                                                                                 <  3:316327/132‑1 (MQ=255)                aaaaaGTGTCGTCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTa                                                                                                                                                 >  4:316327/1‑132 (MQ=255)                   aaGTGTCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGctgtctgt                                                                                                                             <  7:203063/149‑1 (MQ=255)                   aaGTGTCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGctgtctgt                                                                                                                             <  4:276078/149‑1 (MQ=255)                        tCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACgg                                                                                                                        <  8:194608/149‑1 (MQ=255)                                 gCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAg                                                                                                               >  8:95452/1‑149 (MQ=255)                                    ggTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTgg                                                                                                            <  6:323700/149‑1 (MQ=255)                                       gtgACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTa                                                                                                         >  1:6814/1‑149 (MQ=255)                                              ggTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTg                                                                                                             <  8:178929/138‑1 (MQ=255)                                              ggTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTg                                                                                                             >  7:178929/1‑138 (MQ=255)                                                      caTGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCa                                                                                          <  7:95452/149‑1 (MQ=255)                                                       aTGCAGACTGACGATTTGGATTGAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAg                                                                                         >  7:209579/1‑149 (MQ=255)                                                         gCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCATATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGtt                                                                                       >  5:59950/1‑149 (MQ=255)                                                              cTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATgac                                                                                                                                             <  3:180869/90‑1 (MQ=255)                                                              cTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATgac                                                                                                                                             >  4:180869/1‑90 (MQ=255)                                                                 aCGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATAc                                                                               >  7:202913/1‑149 (MQ=255)                                                                   gATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTc                                                                             <  6:152455/149‑1 (MQ=255)                                                                         gATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCgg                                                                       >  7:229702/1‑149 (MQ=255)                                                                            tCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGATGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCACCGgcgc                                                                    >  7:269327/1‑149 (MQ=255)                                                                             cAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCAtt                                                                                                  <  5:137258/118‑1 (MQ=255)                                                                             cAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCAtt                                                                                                  >  6:137258/1‑118 (MQ=255)                                                                              aaGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGcc                                                                   >  4:122304/1‑148 (MQ=255)                                                                              aaGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCATATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGcc                                                                   >  2:8986/1‑148 (MQ=255)                                                                                gCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAAc                                                                >  8:284274/1‑149 (MQ=255)                                                                                   gTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAAcccc                                                             >  5:276419/1‑149 (MQ=255)                                                                                      ggTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCgg                                                           <  8:209579/148‑1 (MQ=255)                                                                                      ggTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGa                                                          <  8:229702/149‑1 (MQ=255)                                                                                      ggTTGGGGATCGCGCAAGTGCCGGTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGa                                                          >  7:127358/1‑149 (MQ=255)                                                                                              aTCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCATATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCg                                                  <  6:59950/149‑1 (MQ=255)                                                                                                 gcgcAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCATATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGAt                                               <  1:8986/149‑1 (MQ=255)                                                                                                  cgcAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATc                                              <  1:48829/149‑1 (MQ=255)                                                                                                   gcAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCg                                             >  1:4779/1‑149 (MQ=255)                                                                                                       gTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGcccc                                         >  1:341088/1‑149 (MQ=255)                                                                                                          ccGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGCCCCCa                                       <  8:202913/148‑1 (MQ=255)                                                                                                                 gtaagtaaTGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGCCCCCATGCTCTcc                               <  2:4779/149‑1 (MQ=255)                                                                                                                               ttttGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGCCCCCATGCTCTCCCGATGCAGCCCGAt                 >  7:166985/1‑149 (MQ=255)                                                                                                                                            cGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGCCCCCATGCTCTCCCGATGCAGCCCGATCACCttgttgttg    <  6:276419/149‑1 (MQ=255)                                                                                                                                              gTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGCCCCCATGCTCTCCCGATGCAGCCCGATCACCTTGTTGTTGaa  <  7:284274/149‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                  CTTTGGGTGGCCGGCAAAAAGTGTCATCGGCTGCAGGTGTGACTTGGTAGTCACATGCAGACTGACGATTTGGATTCAAGCAGTGGGTTGGGGATCGCGCAAGTGCCGTTCGGTAAGTAATGTGACTTTTGTCGCTGAGCGGTCGTATGACGACACGGGCTGTCTGTCACGGCCTAGACAGTGGCTATCTCATTGGCCGTCAGTTCACGATACTCCCCCGGCGCCAACCCCGGATCCAGCCGGATCGCCCCCATGCTCTCCCGATGCAGCCCGATCACCTTGTTGTTGAA  >  NC_002947/1607704‑1607993

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: ‑