Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,232,808	T→A	8.9%	intergenic (‑15/‑54)	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	4,232,808	0	T	A	8.9%	127.9 / 3.2	45	intergenic (‑15/‑54)	PP_3710/PP_5626	hypothetical protein/repressor‑like DNA‑binding domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base T (18/23);  new base A (2/2);  total (20/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

TTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGACGCAAGC  >  NC_002947/4232665‑4232956                                                                                                                                                |                                                                                                                                                      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                                                                               >  1:25940/1‑149 (MQ=255)                                                                   accaccGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCt                                                                               >  2:246889/1‑149 (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)                                                                                                                                             tGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGACGc      >  2:242315/1‑148 (MQ=255)                                                                                                                                                ttGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGACGCAAGc  >  5:84578/1‑149 (MQ=255)                                                                                                                                                |                                                                                                                                                      TTTAGACCCAACCAGAGCTACGCCTGAATCACCCACCAAACCGTCATCTATGGGACTATCCATCTCACCACCGCCTCGCCCGACAATATTTGAAAAATCCACCCCTGCAGAAGTGAAAAAACCACACATACAAATATATCTGTTTGTGTGGCGGTAGGCAAACGCGGCATACCGTCTGCTTT‑TGTAGAGATCATCAAATGTCGCTGCGCCAATCTTATGCGGCAGTGCTTCGGCTGTTACGCGTCAACAGGGGAATGACCCAGCAAGATCTCTCGGGGTCGGTGACGCAAGC  >  NC_002947/4232665‑4232956

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: ‑