Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,635,444	T→G	11.6%	intergenic (+34/+83)	PP_2304 → / ← PP_2305	peptidyl‑prolyl cis‑trans isomerase D/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,635,444	0	T	G	11.6%	135.1 / 10.5	52	intergenic (+34/+83)	PP_2304/PP_2305	peptidyl‑prolyl cis‑trans isomerase D/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (24/22);  new base G (3/3);  total (27/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.06e-01

CACCGACGAAGAGAAGCAGCAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGCCCCAGGGC  >  NC_002947/2635296‑2635586                                                                                                                                                     |                                                                                                                                                  cACCGACGAAGAGAAGCAGCAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGt                                                                                                                                                   <  6:132568/149‑1 (MQ=255)             gaAGCAGCAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCACGAGGCGGCCTGT‑‑TTc                                                                                                                                     <  7:99138/149‑1 (MQ=255)              aaGCAGCAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCt                                                                                                                                            >  4:268180/1‑143 (MQ=255)              aaGCAGCAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCt                                                                                                                                            <  3:268180/143‑1 (MQ=255)              aaGCAGCAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCg                                                                                                                                    >  6:4500/1‑149 (MQ=255)               agcagcAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGt                                                                                                                                   <  6:167625/149‑1 (MQ=255)                   gcagATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTc                                                                                                                              <  6:132591/149‑1 (MQ=255)                   gcagATTCGCCGCTACCTCGCGTCACGTGATGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGATGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTAGT‑TTTc                                                                                                                              >  4:249346/1‑149 (MQ=255)                      gATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCTATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGc                                                                                                                            >  6:245180/1‑148 (MQ=255)                              gcTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGa                                                                                                                   <  7:119978/149‑1 (MQ=255)                                      gcgTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTc                                                                                                           <  5:102941/149‑1 (MQ=255)                                        gTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCAt                                                                                                         >  2:100794/1‑149 (MQ=255)                                             gTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTc                                                                                                                              >  6:58355/1‑123 (MQ=255)                                             gTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTc                                                                                                                              <  5:58355/123‑1 (MQ=255)                                                  ggCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGt                                                                                               >  2:2978/1‑149 (MQ=255)                                                    ccAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGGAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTca                                                                                             <  6:299059/149‑1 (MQ=255)                                                    ccAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTca                                                                                             >  3:148796/1‑149 (MQ=255)                                                          ggACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACgg                                                                                                             <  7:94502/127‑1 (MQ=255)                                                          ggACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACgg                                                                                                             >  8:94502/1‑127 (MQ=255)                                                          ggACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGc                                                                                       <  1:287429/149‑1 (MQ=255)                                                           gACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCAACCGTTACTTAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGA‑‑CACCTGTTTCTCCAGCCGCTAGCACGGTCATTGTCTAAGTTCAAAGTga                                                                                       >  1:108390/1‑148 (MQ=255)                                                           gACTTTGCAGCTTACCTCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGt                                                                                         <  2:108390/146‑1 (MQ=255)                                                                        aCCGCAAGCAGCTGGAAGCCTATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTgg                                                                           <  5:245180/147‑1 (MQ=255)                                                                                    tGGAAGCCAATGCAGACATCACGCGTTACTAAGGTGTTCGTTGAATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGGCAGCCGAGAGCACGGTCATTGTCGATGGTCAAAGAGCCTTCAGCGGTGGGGCTAACCAGGTGc                                                             >  8:61568/1‑149 (MQ=255)                                                                                    tGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGTCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGc                                                             >  1:256117/1‑149 (MQ=255)                                                                                      taaGCCAATGCAGACATCACCGGTTAATAAGGTGTTCGTTGCATGAATAAACAGGCCGCCTCGTGCGGCCTGTTCTTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTg                                                              <  1:100794/147‑1 (MQ=255)                                                                                            aaTGGAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGGCAGCCGCGAGCACGGTCATTGTCGCAGGTCACAGTGCCTTCAGGGGTGGCGCTACCCAGGTGCTACCGCtt                                                     >  8:81777/1‑149 (MQ=255)                                                                                            aaTGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCtt                                                     <  4:148796/149‑1 (MQ=255)                                                                                                 aGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCAccc                                                >  3:268721/1‑149 (MQ=255)                                                                                                  gACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCAcccc                                               >  5:323839/1‑149 (MQ=255)                                                                                                     aTCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCtt                                             >  2:138869/1‑148 (MQ=255)                                                                                                        aCCCGTTTCTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCGGCGAGCACGGTGATTGTCGAAGGTCACAGTGCCTTCAGGTGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCAt                                          <  8:252350/148‑1 (MQ=255)                                                                                                           cGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACt                                      <  3:249346/149‑1 (MQ=255)                                                                                                           cGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACt                                      <  1:138869/149‑1 (MQ=255)                                                                                                                           gTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGt                      >  7:98972/1‑149 (MQ=255)                                                                                                                               cATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATa                                         <  8:56171/126‑1 (MQ=255)                                                                                                                               cATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATa                                         >  7:56171/1‑126 (MQ=255)                                                                                                                                aTGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGATACCGCTTCACCCATTCATAACTGTCCAGCGTATCGCGTGCaa                  >  2:134399/1‑148 (MQ=255)                                                                                                                                    cgaaACAGGCCGCACGAGGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGACGGTCACAGTGCCTTCAGGGGTGGCGCTAAGCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGt                      <  7:57819/139‑1 (MQ=255)                                                                                                                                    cgaaACAGGCCGCACGAGGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCAATCGTATCGCGt                      >  8:57819/2‑140 (MQ=255)                                                                                                                                    agaaACAGGCCGGCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAAtctct             <  2:256117/149‑1 (MQ=255)                                                                                                                                     gaaACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAAtctctc            >  7:195967/1‑149 (MQ=255)                                                                                                                                     gaaACAGGCCGCACGAGGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATaa                                        <  6:321821/121‑1 (MQ=255)                                                                                                                                     gaaACAGGCCGCACGAGGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATaa                                        >  5:321821/1‑121 (MQ=255)                                                                                                                                     gaaACAGGCCGCACGAGGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAAtctctc            >  7:175268/1‑149 (MQ=255)                                                                                                                                         cAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGccc        <  4:268721/149‑1 (MQ=255)                                                                                                                                             ccgccTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGCCCCAgg    >  5:265903/1‑149 (MQ=255)                                                                                                                                              cgccTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTGACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGCCCCAggg   <  8:75397/149‑1 (MQ=255)                                                                                                                                              cgccTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACt                                      >  3:246929/1‑114 (MQ=255)                                                                                                                                              cgccTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACt                                      <  4:246929/114‑1 (MQ=255)                                                                                                                                              cgccTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGCCCCAggg   <  6:265903/149‑1 (MQ=255)                                                                                                                                               gccTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGCCCCAGGGc  >  5:207550/1‑149 (MQ=255)                                                                                                                                                ccTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGCCCCAGGGc  >  4:82149/1‑148 (MQ=255)                                                                                                                                                     |                                                                                                                                                  CACCGACGAAGAGAAGCAGCAGATTCGCCGCTACCTCGCGTCACGTGCTGGCCAGCAGGACTTTGCCGCTTACCGCAAGCAGCTGGAAGCCAATGCAGACATCACCCGTTACTAAGGTGTTCGTTGCATGAAGAAACAGGCCGCCTCGTGCGGCCTGT‑‑TTCGT‑TTTCGCCAGCCGCGAGCACGGTCATTGTCGAAGGTCACAGTGCCTTCAGGGGTGGCGCTAACCAGGTGCTACCGCTTCACCCCTTCATAACTGTCCAGCGTATCGCGTGCAATCTCTCGCCCCAGGGC  >  NC_002947/2635296‑2635586

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: ‑