Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,232,804	C→T	8.8%	intergenic (‑11/‑58)	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	4,232,804	0	C	T	8.8%	122.9 / 2.4	46	intergenic (‑11/‑58)	PP_3710/PP_5626	hypothetical protein/repressor‑like DNA‑binding domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base C (18/23);  new base T (2/2);  total (21/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.62e-01

TGGCAATTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGAC  >  NC_002947/4232659‑4232950                                                                                                                                                  |                                                                                                                                                    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                                                                      >  8:149360/1‑124 (MQ=255)                                                                                                     aaaTCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTAt                                                                      <  7:149360/124‑1 (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)                                                                                                                                            atatatCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGt                                            >  6:22831/1‑111 (MQ=255)                                                                                                                                            atatatCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGt                                            <  5:22831/111‑1 (MQ=255)                                                                                                                                                atCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGAc  >  5:301846/1‑149 (MQ=255)                                                                                                                                                 tCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGAc  <  1:47755/148‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                    TGGCAATTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGAC  >  NC_002947/4232659‑4232950

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: ‑