Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,232,797	A→G	9.7%	intergenic (‑4/‑65)	PP_3710 ← / → PP_5626	hypothetical protein/repressor‑like DNA‑binding domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,232,797	0	A	G	9.7%	107.1 / 3.1	41	intergenic (‑4/‑65)	PP_3710/PP_5626	hypothetical protein/repressor‑like DNA‑binding domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base A (16/21);  new base G (2/2);  total (18/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01

TTCGACTGGCAATTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCG  >  NC_002947/4232653‑4232945                                                                                                                                                 |                                                                                                                                                      ttcGACTGGCAATTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAata                                                                                                                                                    >  3:235706/1‑148 (MQ=255)       tGGCAATTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATACATCTAACCACAGCCTCTCCCGACAATATTTGAAAAATCCACACATGCAGAAGTGAAAAAACCACACATAAAAATAAATCTGt                                                                                                                                             >  4:201349/1‑149 (MQ=255)         gCAATTTAGACCCAACCAGAGCTACGCCTCAAACACCCACCAATCCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGCCAATATTTGAAAAATCCACCCGTGCAGAACTGAAAAAACCACACATACAAATATATATgata                                                                                                                                           >  3:173076/1‑146 (MQ=255)             tttAGACCCAACCAGAGCTACGCCTGAATCACCCACCTCACCGTCATCTATGGGACTATCCATCTGACCACCGCCTCGCCCCACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTtgtgt                                                                                                                                       <  4:173076/149‑1 (MQ=255)              ttAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTtgtgtg                                                                                                                                      >  5:227247/1‑149 (MQ=255)                  aCCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCgg                                                                                                                                  >  7:241189/1‑149 (MQ=255)                   cccAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACAAACAGATATATTTGTATGTGTggtttt                                                                                                                                 <  5:37540/149‑5 (MQ=255)                                    cTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATAc                                                                                                                <  6:227247/149‑1 (MQ=255)                                          cacccaccAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTg                                                                                                          >  4:283399/1‑149 (MQ=255)                                             ccaccaAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCtt                                                                                                       <  3:37396/149‑1 (MQ=255)                                                ccaAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑Tg                                                                                                   <  3:262781/149‑1 (MQ=255)                                                  aaaCCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTa                                                                                                 <  1:170938/149‑1 (MQ=255)                                                    aCCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTaga                                                                                               <  7:90092/149‑1 (MQ=255)                                                    aCCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTa                                                                                                 >  6:45437/1‑147 (MQ=255)                                                       gTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGat                                                                                            <  5:128622/149‑1 (MQ=255)                                                             tATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGAtcatca                                                                                       >  2:306661/1‑148 (MQ=255)                                                                   aCTATCCATCTCACCACCGCCTCGCAAGACAATATTTGAAAAATCCAGCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTATGCAAACGCGTCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCg                                                                                <  2:237556/149‑1 (MQ=255)                                                                       tCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTgc                                                                            >  3:174823/1‑149 (MQ=255)                                                                         cATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTgcgc                                                                          <  2:272508/149‑1 (MQ=255)                                                                             tcACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATTTCGCTGCGCCaa                                                                       >  8:288844/1‑148 (MQ=255)                                                                               accaccGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAAt                                                                      <  4:235706/147‑1 (MQ=255)                                                                               accaccGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATc                                                                     <  8:241189/148‑1 (MQ=255)                                                                               accaccGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCt                                                                    >  2:246889/1‑149 (MQ=255)                                                                               accaccGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCt                                                                    >  1:25940/1‑149 (MQ=255)                                                                                 caccGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTa                                                                  >  4:126332/1‑149 (MQ=255)                                                                                  accGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTAt                                                                 <  2:3870/149‑1 (MQ=255)                                                                                               aCAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTc                                                    <  2:25940/149‑1 (MQ=255)                                                                                                  atttttGAAAAATCCACCCCTGCAGAAGGGTAAAAACCACACATACAAATATATCTGTTTGTGGGGCGGGTGGCAAACGCGGCATACCGTCTGCTTTATGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCgg                                                  <  1:246889/146‑1 (MQ=255)                                                                                                           aaaTCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTAt                                                                 <  7:149360/124‑1 (MQ=255)                                                                                                           aaaTCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTAt                                                                 >  8:149360/1‑124 (MQ=255)                                                                                                                   cgcttcAGAATTGAATAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAgg                                <  3:201349/144‑1 (MQ=255)                                                                                                                    ccTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAggg                               <  4:174823/149‑1 (MQ=255)                                                                                                                        cAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGaa                            <  3:283399/148‑1 (MQ=255)                                                                                                                                      ccACACAAACAGATATATTTGTATGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCAAATCTTATGAGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGAtc             >  8:75504/1‑149 (MQ=255)                                                                                                                                          acaTACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGAtctctc         >  6:297653/1‑149 (MQ=255)                                                                                                                                            aaaCAGATATATTTGTATGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGAt              <  7:143441/140‑1 (MQ=255)                                                                                                                                            aaaCAGATATATTTGTATGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGAt              >  8:143441/3‑142 (MQ=255)                                                                                                                                            aTACAAATATATCTGTTTGTGTGTCGGTAGGCAAACGCTGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAATATCTCTCgg       <  5:311056/149‑1 (MQ=255)                                                                                                                                              aCAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACATGGGAATGACCCAGCAAGATCTCTCggg      >  3:286753/1‑148 (MQ=255)                                                                                                                                              aCAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCggg      <  4:286753/148‑1 (MQ=255)                                                                                                                                               cAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGt    <  3:126332/149‑1 (MQ=255)                                                                                                                                                aaaTATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTc   >  3:61579/1‑149 (MQ=255)                                                                                                                                                 aaTATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCg  >  2:47755/1‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                                      TTCGACTGGCAATTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCG  >  NC_002947/4232653‑4232945

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: ‑