Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,246,285	A→G	17.1%	intergenic (+31/+60)	ibpA → / ← PP_1983	small heat shock protein IbpA/PAS/PAC/GAF sensor‑containing diguanylate cyclase/phosphodiesterase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,246,285	0	A	G	17.1%	74.0 / 8.7	35	intergenic (+31/+60)	ibpA/PP_1983	small heat shock protein IbpA/PAS/PAC/GAF sensor‑containing diguanylate cyclase/phosphodiesterase
Reads supporting (aligned to +/- strand):  ref base A (13/16);  new base G (3/3);  total (16/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-01

AAGTGAAGGCCGCCGGCCTGGCCAATGGCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGATAACCCTGGTACAGATGGCA  >  NC_002947/2246136‑2246434                                                                                                                                                      |                                                                                                                                                        aaGTGAGGGCCGCCGGCCTGGCCAATGGCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGAAACGAAAAAAAGGGCACCTCCa                                                                                                                                                         >  1:40878/1‑150 (MQ=255)    tGAAGGCCGCCGGCCTGGCCAATGGCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCagag                                                                                                                                                      <  1:227659/150‑1 (MQ=255)            gccgGCCTGGCCAATGGCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCACATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCTGGAGGTGCCC‑‑tt                                                                                                                                            <  2:98732/150‑1 (MQ=255)                   tGGCCAATGGCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTg                                                                                                                                     <  1:300448/150‑1 (MQ=255)                       cAATGGCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTtc                                                                                                                                 >  1:791966/1‑150 (MQ=255)                            gCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACg                                                                                                                            <  2:215424/150‑1 (MQ=255)                                     gCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCcgc                                                                                                                   <  1:307512/150‑1 (MQ=255)                                         cGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAg                                                                                                               <  2:40878/150‑1 (MQ=255)                                                         gTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATg                                                                                               >  2:148091/1‑150 (MQ=255)                                                             cTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGAt                                                                                           >  1:483201/1‑150 (MQ=255)                                                             cTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGAt                                                                                           >  1:119944/1‑150 (MQ=255)                                                              tGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATc                                                                                          <  1:794042/150‑1 (MQ=255)                                                                   aagCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTaa                                                                                     <  1:637830/150‑1 (MQ=255)                                                                         aggcgaagCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCAC‑‑TTTTTGCGGCTTCTAACGCTTATCCGCGTAGGTGCGCGGCCGTCATGCGATGAGTAGACTGcc                                                                               <  2:626089/150‑1 (MQ=255)                                                                             caagCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGgcg                                                                           >  2:791896/1‑150 (MQ=255)                                                                              aagCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGgcgc                                                                          >  1:411099/1‑150 (MQ=255)                                                                                 cgcATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTc                                                                       <  2:411099/150‑1 (MQ=255)                                                                                   cATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCa                                                                     <  1:343696/150‑1 (MQ=255)                                                                                         gATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACa                                                               >  1:28383/1‑150 (MQ=255)                                                                                           tCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATc                                                             <  2:483201/150‑1 (MQ=255)                                                                                                 gCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGa                                                       >  1:228933/1‑150 (MQ=255)                                                                                                 gCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGa                                                       <  2:228933/150‑1 (MQ=255)                                                                                                       tctcAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTcc                                                 <  1:167642/147‑1 (MQ=255)                                                                                                        aCCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCcg                                                <  2:28383/150‑1 (MQ=255)                                                                                                           aGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCGTCTGGCGCTTCCAGCAACATCTGCCGTCACTcccaca                                             >  2:167642/1‑146 (MQ=255)                                                                                                                   aCTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAAt                                     <  2:791966/150‑1 (MQ=255)                                                                                                                       aTCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCa                                                                     <  2:32219/114‑1 (MQ=255)                                                                                                                       aTCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCa                                                                     >  1:32219/1‑114 (MQ=255)                                                                                                                                   cacgaaaaaGGGCACCTCTGGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGa                      <  1:588419/145‑1 (MQ=255)                                                                                                                                   cacgaaaaaGGGCACCTCTGGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGa                      >  2:588419/5‑149 (MQ=255)                                                                                                                                      aaaaaaGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTAACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCCGATAAc                  >  1:759368/1‑150 (MQ=255)                                                                                                                                          aaGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTTCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGTCGGCGCCTCCAGCAACATTTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGATAACCCTg              >  2:267101/1‑150 (MQ=255)                                                                                                                                           aGGGCACCTCTGGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCa                        <  2:388847/139‑1 (MQ=255)                                                                                                                                           aGGGCACCTCTGGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCa                        >  1:388847/1‑139 (MQ=255)                                                                                                                                             ggCACCTCTGGAGGTGCCCTTTTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGATAACCCTgg             >  2:96335/1‑150 (MQ=255)                                                                                                                                              gCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGATAACCCTGGTAc          >  1:617816/1‑150 (MQ=255)                                                                                                                                                    ccAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGGGCCGGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGATAACCCTGGTACAGATgg    <  1:247383/150‑1 (MQ=255)                                                                                                                                                      agagGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGATAACCCTGGTACAGATGGCa  >  1:276059/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                        AAGTGAAGGCCGCCGGCCTGGCCAATGGCCTGCTCAGCATCGACCTGCTGCGCATCGTGCCTGAAGAAGCCAAGGCCAAGCGCATTCCGATCAATGGCGAAAAACCAGCGCTGAACTGATCGAGCTGCAACGAAAAAAAGGGCACCTCCAGAGGTGCCC‑‑TTTTTCGTGCTTCTCACGCAGTCCCGCGTAGGTGCGCGGCCGTCATGCGATCAGTAATCTGCCGGCGCCTCCAGCAACATCTGCCGAAACTCCGGTAACGGTAATGGCCGGCTGTGCAGATAACCCTGGTACAGATGGCA  >  NC_002947/2246136‑2246434

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑