Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,111,305	G→T	8.2%	intergenic (+26/‑84)	PP_0970 → / → PP_0971	cyanate MFS transporter/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,111,305	0	G	T	8.2%	147.1 / 4.0	49	intergenic (+26/‑84)	PP_0970/PP_0971	cyanate MFS transporter/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (22/23);  new base T (2/2);  total (24/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01

ACCTGACCGGCGGCTGGACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTG  >  NC_002947/1111158‑1111445                                                                                                                                                    |                                                                                                                                                 acctgaccGGCGGCTGGACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCg                                                                                                                                                  <  1:26233/148‑1 (MQ=255)       ccGGCGGCTGGACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGtgcctgc                                                                                                                                           <  1:16245/149‑1 (MQ=255)        cggcggCTGGACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGtgcctgc                                                                                                                                           >  3:321154/1‑148 (MQ=255)          gcggcTGGACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCT‑GGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGtgcctgcc                                                                                                                                          >  6:20076/1‑146 (MQ=255)                 gACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCg                                                                                                                                 <  3:90684/149‑1 (MQ=255)                 gACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGGTGGCGCCGTGGTGTTCGGTCTGGGGGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGc                                                                                                                                  <  2:187388/148‑1 (MQ=255)                  aCGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCgg                                                                                                                                <  5:147007/149‑1 (MQ=255)                    ggCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGTCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCggg                                                                                                                               >  6:225214/1‑148 (MQ=255)                           ggTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGGTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTgg                                                                                                                          <  2:349336/146‑1 (MQ=255)                            gTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCGTGCCAAGAGGGCGGGACTGGCAt                                                                                                                       >  6:192443/1‑148 (MQ=255)                            gTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCAt                                                                                                                       >  1:21566/1‑148 (MQ=255)                            gTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGCCCTCTTGGCAGGCACGAGGACGGGa                                                                                                                              >  4:136988/1‑141 (MQ=39)                            gTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGCCCTCTTGGCAGGCACGAGGACGGGa                                                                                                                              <  3:136988/141‑1 (MQ=39)                                gATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGGGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCGTGCCAAGAGGGCGGGACTGGCATAAGcc                                                                                                                  <  5:192443/149‑1 (MQ=255)                                       gCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCggg                                                                                                            <  4:301156/148‑1 (MQ=255)                                        cGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGc                                                                                                          <  6:389358/149‑1 (MQ=255)                                           tGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGTATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCgggg                                                                                                           >  7:105267/1‑145 (MQ=255)                                           tGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGCCCTCTTGGCAGGCACGAGGACgg                                                                                                                                >  6:75824/1‑124 (MQ=38)                                           tGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGCCCTCTTGGCAGGCACGAGGACgg                                                                                                                                <  5:75824/124‑1 (MQ=38)                                             cTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGAt                                                                                                      >  6:88099/1‑148 (MQ=255)                                                ggCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATc                                                                                                  <  4:257296/149‑1 (MQ=255)                                                ggCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATc                                                                                                  <  3:152695/149‑1 (MQ=255)                                                  cGTTGGCGCCGTGGTGTTCGGGCT‑GGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑g                                                                                             <  5:20076/149‑1 (MQ=255)                                                       gcgcCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGt                                                                                         >  2:5644/1‑149 (MQ=255)                                                           cGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTc                                                                                     <  5:88099/149‑1 (MQ=255)                                                               gtgtTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAAc                                                                                 <  5:38687/149‑1 (MQ=255)                                                                         tGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑ggacgga                                                                     <  4:321154/149‑1 (MQ=255)                                                                           ggTGCCGGGCGGGCGCTGCATGTGCAGTTGACCTGCGAAAAAGTCTGAGGCGTGTTTTAGCAGTCCCGTCCTCGTGCCTGACAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑ggacgga                                                                     <  4:147634/147‑1 (MQ=255)                                                                                    cgggcgCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCaa                                                          <  5:225214/149‑1 (MQ=255)                                                                                     tgtgtcTGCATGTGCATGTTACCTGTGAAAAAGTCTGATGCCTGTTTTTGCAGTCCCGTCCTCGTGCCTGGCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCaa                                                          <  4:248643/143‑1 (MQ=255)                                                                                     gggcgCTGGATGTGCTGGTGACGTGCGAAAAAGTCTGAGGCGTGTTTTAGCAGTGCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATTAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAAt                                                         <  4:272006/149‑1 (MQ=255)                                                                                        cgcTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAg                                                      <  3:301487/149‑1 (MQ=255)                                                                                         gcTGCATGTGCAGGTGACCTGTGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑A‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCaa                                                          >  3:248643/1‑144 (MQ=255)                                                                                             cATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATg                                                 >  4:52294/1‑149 (MQ=255)                                                                                                   cAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAAcc                                           >  8:168010/1‑149 (MQ=255)                                                                                                         aCCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGcc                                      >  1:294990/1‑148 (MQ=255)                                                                                                          ccTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCt                                    <  8:105267/149‑1 (MQ=255)                                                                                                            tGCGAACAAGTCTGTGGCGTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGccc                                     <  6:57395/146‑1 (MQ=255)                                                                                                            tGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGccc                                     >  5:57395/1‑146 (MQ=255)                                                                                                              cGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGAt                                 <  3:52294/148‑1 (MQ=255)                                                                                                                aaaaaGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCAc                              >  1:348524/1‑149 (MQ=255)                                                                                                                 aaaaGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCgg                                                                                                             >  7:285640/1‑73 (MQ=255)                                                                                                                             ccTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAg                 >  6:360096/1‑149 (MQ=255)                                                                                                                             ccTGTTTTAGCAGACCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTTTCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAg                 >  6:9215/1‑149 (MQ=255)                                                                                                                               tGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGc               >  2:366429/1‑149 (MQ=255)                                                                                                                                gTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGATGGCGGTTTTCGAACCTAAGGGACGGACCAGCCCCCAATGAGTGATGCCCACCGCGCCCTGATCACCCGTTTCTAc                    >  1:315583/1‑147 (MQ=255)                                                                                                                                          tCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGcc    <  2:21566/149‑1 (MQ=255)                                                                                                                                            ccGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTg  >  3:270995/1‑149 (MQ=255)                                                                                                                                            ccGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTg  >  4:336856/1‑149 (MQ=255)                                                                                                                                             cGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTg  >  1:370821/1‑148 (MQ=255)                                                                                                                                                    |                                                                                                                                                 ACCTGACCGGCGGCTGGACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCG‑T‑GCAGTTTTCGAACCTA‑‑GGACGGACCAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTG  >  NC_002947/1111158‑1111445

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑