Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,613,586	T→A	6.5%	G162G (GGT→GGA)	PP_4933 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,613,586	0	T	A	6.5%	188.8 / 3.9	61	G162G (GGT→GGA)	PP_4933	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (27/30);  new base A (2/2);  total (29/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01

TACAGGAAGTGGCCGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAGCTTGTTCCACGTT  >  NC_002947/5613441‑5613733                                                                                                                                                  |                                                                                                                                                     tACAGGAAGTGGCCGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGTTGGCTCCGGAGTCCGGTGcca                                                                                                                                                  <  2:299748/150‑2 (MQ=255)    aGGAAGTGGCCGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCAc                                                                                                                                              >  2:276700/1‑150 (MQ=255)         gTGGCCGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCg                                                                                                                                         <  2:986157/150‑1 (MQ=255)           ggCCGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGt                                                                                                                                       <  1:244516/150‑1 (MQ=255)             ccGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGc                                                                                                                                     >  1:88760/1‑150 (MQ=255)              cGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCa                                                                                                                                    >  2:241863/1‑150 (MQ=255)               gaggagTGCCTGCTGGAATCCCCTGAAGGTTGGCTGGGCGTGCGCTTCAACGACACCTGGCTGTCCATCCCCTACGCCCCCGCCCTGCACTACCGCGACACGCTCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCAt                                                                                                                                   <  1:524218/150‑1 (MQ=255)               gaggagTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCAt                                                                                                                                   <  1:241863/150‑1 (MQ=255)                           ctgGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTg                                                                                                                       <  2:883261/150‑1 (MQ=255)                            tgGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCg                                                                                                                               >  2:303346/1‑141 (MQ=255)                            tgGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCg                                                                                                                               <  1:303346/141‑1 (MQ=255)                              gAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCAc                                                                                                                                              <  1:1208364/124‑1 (MQ=255)                              gAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCAc                                                                                                                                              >  2:1208364/1‑124 (MQ=255)                                   cccGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTg                                                                                                                                      >  2:193111/1‑127 (MQ=255)                                   cccGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTg                                                                                                                                      <  1:193111/127‑1 (MQ=255)                                     cGGAAGGTTGGCTGGGCGGGCGCTTCGACGACACCTGGCTGACCATCCCCTACGCCGCCGCCCTGCACTGCCGCGAAACACCCCACTTCGTGCTGGCTGCGGGGTCCGGTGCC‑GCAAGCCCGGTGCATTGCGGCAACCTGATGCtcgtgg                                                                                                             >  2:375872/1‑145 (MQ=255)                                                         cgcTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTAtgtg                                                                                         <  1:398928/150‑1 (MQ=255)                                                               aaCGACACCTGGCTGCCGATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCCCCCCCCCGCCCACGTGCACCTg                                                                                   >  2:615059/1‑150 (MQ=255)                                                                aCGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGa                                                                                                            <  2:69728/124‑1 (MQ=255)                                                                aCGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGa                                                                                                            >  1:69728/1‑124 (MQ=255)                                                                       cTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGt                                                                                                                                       <  1:1092738/90‑1 (MQ=255)                                                                       cTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGt                                                                                                                                       >  2:1092738/1‑90 (MQ=255)                                                                        tGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCACCGGACTCCGGAGcca                                                                                                                                                  >  2:333028/1‑78 (MQ=255)                                                                        tGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCACCGGACTCCGGAGcca                                                                                                                                                  <  1:333028/79‑2 (MQ=255)                                                                              cccATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCgg                                                                                                                              <  2:320695/92‑1 (MQ=255)                                                                              cccATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCgg                                                                                                                              >  1:320695/1‑92 (MQ=255)                                                                                cATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACa                                                                  >  2:516072/1‑150 (MQ=255)                                                                                 aTCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAg                                                                 <  1:516072/150‑1 (MQ=255)                                                                                   ccccTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCt                                                               <  1:473085/150‑1 (MQ=255)                                                                                   ccccTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCt                                                               <  1:473196/150‑1 (MQ=255)                                                                                      cTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACgg                                                                                                  <  1:608001/112‑1 (MQ=255)                                                                                      cTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACgg                                                                                                  >  2:608001/1‑112 (MQ=255)                                                                                       tACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATCCACCTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATc                                                           <  2:709649/150‑1 (MQ=255)                                                                                          gccgccgccCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTAt                                                        <  1:276700/150‑1 (MQ=255)                                                                                           ccgccgccCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATg                                                       >  1:232382/1‑150 (MQ=255)                                                                                            cgccgccCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCgg                                                                                                                              <  1:218262/78‑1 (MQ=255)                                                                                            cgccgccCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCgg                                                                                                                              >  2:218262/1‑78 (MQ=255)                                                                                             gccgccCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGAc                                                     <  2:88760/150‑1 (MQ=255)                                                                                                gccCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATg                                                  >  1:887307/1‑150 (MQ=255)                                                                                                   cTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATgcgc                                               <  2:982603/150‑1 (MQ=255)                                                                                                         tACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGt                                                                                                                                       >  1:630959/1‑56 (MQ=255)                                                                                                         tACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGt                                                                                                                                       <  2:630959/56‑1 (MQ=255)                                                                                                         tACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCaa                                         >  2:760875/1‑150 (MQ=255)                                                                                                         tACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCaa                                         >  2:760318/1‑150 (MQ=255)                                                                                                         tACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCaa                                         <  1:809005/150‑1 (MQ=255)                                                                                                               gAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGccc                                   >  2:125805/1‑150 (MQ=255)                                                                                                                 aaCACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCg                                 >  1:682058/1‑150 (MQ=255)                                                                                                                    acCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGa                              >  2:972643/1‑150 (MQ=255)                                                                                                                      cccACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCa                                                                               >  2:993510/1‑99 (MQ=255)                                                                                                                      cccACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCa                                                                               <  1:993510/99‑1 (MQ=255)                                                                                                                       ccACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGc                           >  2:678391/1‑150 (MQ=255)                                                                                                                              gTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGaaa                    <  2:682058/150‑1 (MQ=255)                                                                                                                              gTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGaaa                    <  1:678391/150‑1 (MQ=255)                                                                                                                                   ggCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAg               <  1:972643/150‑1 (MQ=255)                                                                                                                                      accGGACTCCGGAGCCAGCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAGCt             >  2:220071/2‑150 (MQ=255)                                                                                                                                          gAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCt                                                                                    >  2:36338/1‑74 (MQ=255)                                                                                                                                          gAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCt                                                                                    <  1:36338/74‑1 (MQ=255)                                                                                                                                           actCCGGAGCCAGCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAGCTTGTTc        <  1:220071/148‑1 (MQ=255)                                                                                                                                            gTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAGCTTGTTccc      >  1:395478/1‑149 (MQ=255)                                                                                                                                             tCCGGTGCC‑GCACGCGCGGTGCAGTGCGGCAAAGTGATGCTACTGGAGCGGCCACGGGCCTATGTGCCCGTGCCCACGGCTTCGCTAGAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAGCTTGTTCCAc     >  2:461298/1‑150 (MQ=255)                                                                                                                                                ggTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAGCTTGTTCCACGtt  <  2:232382/150‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                     TACAGGAAGTGGCCGAGGAGTGCCTGCTGGAAACCCCGGAAGGTTGGCTGGGCGGGCGCTTCAACGACACCTGGCTGCCCATCCCCTACGCCGCCGCCCTGCACTACCGCGAAACACCCCACTTCGTGCTGGCTCCGGAGTCCGGTGCC‑GCACGCCCGGTGCATTGCGGCAAACTGATGCTACTGGAGCGCCCACGGGCCTATGTGCACCTGCCCACCGCTTCGCTACAGCTGATCTATGACATGCGCCTGCAAGTGCCCCGGGACGCCAAGAAACTCAGCTTGTTCCACGTT  >  NC_002947/5613441‑5613733

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑