Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,603,088	Δ1 bp	9.6%	coding (45/441 nt)	PP_5513 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,603,088	0	G	.	9.6%	158.3 / 11.2	52	coding (45/441 nt)	PP_5513	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (21/26);  new base . (2/3);  total (23/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.51e-01

GCGATAAGCGCTACCGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTACCCCGTCCGTTCTGGTCACTGATTCCCCCAT  >  NC_002947/2602940‑2603236                                                                                                                                                         |                                                                                                                                                     gCGATAAGCGCTACCGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATggag                                                                                                                                                      <  5:156123/149‑1 (MQ=255)        gcgcTACCGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTTCCTCCATCCACTTGATGGA‑GAAGTgt                                                                                                                                               <  4:295297/149‑2 (MQ=255)        gcgcTACCGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTg                                                                                                                                                >  2:45613/1‑148 (MQ=255)            tACCGCAGTGACCCGGCATAACGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATGAAGTGGATGGAGGAAGTGGATgg                                                                                                                                           >  4:54787/1‑149 (MQ=255)              ccGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTTCCTCCATCCACTTGATGGA‑GAAGTgttcgtc                                                                                                                                          <  3:238849/148‑7 (MQ=38)              ccGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTTCCTCCATCCACTTGATGGA‑GAAGTgttcgtc                                                                                                                                          <  5:62933/148‑7 (MQ=38)               cGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCTATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGt                                                                                                                                        <  2:63743/149‑1 (MQ=255)                   gTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGac                                                                                                                                    <  2:187409/149‑1 (MQ=255)                       cccGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGactact                                                                                                                                <  1:221379/149‑1 (MQ=255)                       cccGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGactact                                                                                                                                <  6:61381/149‑1 (MQ=255)                         cGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCCACTTGATggagaa                                                                                                                                                    <  1:100096/127‑3 (MQ=255)                         cGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCCACTTGATggagaa                                                                                                                                                    >  2:100096/1‑125 (MQ=255)                               aCCGTGCCCTAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAATACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGa                                                                                                                                     <  6:181377/136‑1 (MQ=255)                               aCCGTGCCAGAGTCCAGGCCAAGCTCCTCCGTTCCAAAGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGCCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGa                                                                                                                                     >  5:181377/1‑136 (MQ=255)                                  gTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCg                                                                                                                     >  3:106133/1‑149 (MQ=255)                                     cccGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCAACAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCt                                                                                                                  >  3:200119/1‑149 (MQ=255)                                             cAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGACTTACTACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCg                                                                                                             <  1:256759/149‑1 (MQ=255)                                              aGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTAc                                                                                                         >  4:111883/1‑149 (MQ=255)                                               ggCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACt                                                                                                        <  7:79504/149‑1 (MQ=255)                                                gCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTg                                                                                                       <  6:272337/149‑1 (MQ=255)                                                      ctcctcCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCgg                                                                                                 <  8:93294/149‑1 (MQ=255)                                                            cGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCg                                                                                            <  6:180384/148‑1 (MQ=255)                                                              ttCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAg                                                                                         >  6:82438/1‑149 (MQ=255)                                                                 cAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCg                                                                                                                                         <  5:83065/98‑1 (MQ=255)                                                                 cAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCg                                                                                                                                         >  6:83065/1‑98 (MQ=255)                                                                 cAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGa                                                                                      >  3:110385/1‑149 (MQ=255)                                                                 cAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGa                                                                                      <  4:200119/149‑1 (MQ=255)                                                                  aaCGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAA‑GA‑‑ACACTT‑CTCCTTCAAGTGGATGGAGGTAGTTGATGGAGTGGACTACTGGGCATCTTCGGCTTTCCGCTACTGGATCGGTCCCGAAGGGAc                                                                                     <  7:194718/149‑1 (MQ=255)                                                                      tcttctGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTggg                                                                                                                             <  1:121957/105‑1 (MQ=255)                                                                      tcttctGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTggg                                                                                                                             >  2:121957/1‑105 (MQ=255)                                                                           tGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTc                                                                                                                      >  6:309811/1‑107 (MQ=255)                                                                           tGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTc                                                                                                                      <  5:309811/107‑1 (MQ=255)                                                                                   ggCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTgg                                                                                                                                               <  4:16127/74‑1 (MQ=255)                                                                                   ggCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTgg                                                                                                                                               <  4:11930/74‑1 (MQ=255)                                                                                   ggCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTgg                                                                                                                                               >  3:16127/1‑74 (MQ=255)                                                                                   ggCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTgg                                                                                                                                               >  3:11930/1‑74 (MQ=255)                                                                                    gCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGAt                                                                     <  3:111883/147‑1 (MQ=255)                                                                                    gCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGAt                                                                     <  5:82438/147‑1 (MQ=255)                                                                                      cGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTcc                                                                 >  1:125266/1‑149 (MQ=255)                                                                                       gCAATAAGAAAAACAACAATGAGCGGCTGCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTAGCCTTTCCGCTACTGGATAGGTCCCGAAGGGACTGGCCGGTACGTGGGTGTccc                                                                >  1:18845/1‑149 (MQ=255)                                                                                         aaTAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCg                                                              >  4:143262/1‑149 (MQ=255)                                                                                              gAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGt                                                                         <  6:15799/133‑1 (MQ=255)                                                                                              gAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGt                                                                         >  5:15799/1‑133 (MQ=255)                                                                                                         aTGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGa                                              <  1:45613/149‑1 (MQ=255)                                                                                                             gCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATg                                            <  2:15502/147‑1 (MQ=255)                                                                                                             gCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATg                                            >  1:15502/1‑147 (MQ=255)                                                                                                                     aCCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGt                                  <  4:110385/149‑1 (MQ=255)                                                                                                                         ac‑ga‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGGTGGAGCTTCTGTAccc                              >  6:224705/1‑149 (MQ=255)                                                                                                                                acacTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTACCccgtc                          >  3:58944/1‑149 (MQ=255)                                                                                                                                  acttcctcCATCCACTTGATGGA‑GAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTCCCccgtccg                        >  7:54639/6‑149 (MQ=255)                                                                                                                                  acttcctcCATCCACTTGATGGA‑GAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTACAccgtccg                        >  7:58995/6‑149 (MQ=255)                                                                                                                                          cATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTACCCCGTCCGTTCTgg                  <  3:143262/148‑1 (MQ=255)                                                                                                                                          cATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTACCCCGTCCGTTCTGGt                 >  2:264451/1‑149 (MQ=255)                                                                                                                                              aaGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGGTGGAGCTTCTGTACCCCGTCCGTTCTGGTCAc              <  5:224705/148‑1 (MQ=255)                                                                                                                                                    atggaGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTACCCCGTCCGTTCTGGTCACTGATTcc       <  4:106133/149‑1 (MQ=255)                                                                                                                                                         ggaAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTTGCTTCATCACTGATGGAGCTTCTGAACCCCGTCCGTTCTGGTCACTGATTCCCACAt  >  6:149499/1‑149 (MQ=255)                                                                                                                                                         |                                                                                                                                                     GCGATAAGCGCTACCGCAGTGACCCGGCATACCGTGCCCGAGTCCAGGCCAAGCTCCTCCGTTCCAACGTCTTCTGACGCCTGGCCGCAATAAGAAAAACAACAATGAGCGGCTTCACCGAC‑GA‑‑ACACTT‑CTCCATCAAGTGGATGGAGGAAGTGGATGGCGTGGACTACTGGGCATCTTCGCCTTTCCGCTACTGGATCGGTCCCGAAGGGACTGGCCGGTACGTGGATGTCCCCGCTGGCTTCATCACTGATGGAGCTTCTGTACCCCGTCCGTTCTGGTCACTGATTCCCCCAT  >  NC_002947/2602940‑2603236

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: ‑