Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,488,993	C→T	10.0%	intergenic (+346/+225)	PP_3981 → / ← PP_3982	transposase/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,488,993	0	C	T	10.0%	110.4 / 2.8	40	intergenic (+346/+225)	PP_3981/PP_3982	transposase/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (16/20);  new base T (2/2);  total (18/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.01e-01

CCCAAGGCTCGACATTGCGCCATGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGG  >  NC_002947/4488850‑4489118                                                                                                                                                 |                                                                                                                              cccAAGGCTCGACATTGCGCCATGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTccc                                                                                                                           <  4:128000/148‑1 (MQ=255)   cAAGGCTCGACATTGCGCCATGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGcc                                                                                                                        >  4:238612/1‑149 (MQ=255)         tCGACATTGCGCCATGACGACTGGAAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGAACACGGGCGGGAGGTTCCCGcccgt                                                                                                                     >  1:18363/1‑145 (MQ=255)         tCGACATTGCGCCATGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAGGTTCCCGcccgt                                                                                                                     <  2:18363/146‑3 (MQ=255)            aCATTGCGCCATGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATgcgc                                                                                                               <  4:132981/149‑1 (MQ=255)            aCATTGCGCCATGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATgcgc                                                                                                               <  5:34410/149‑1 (MQ=255)                      aTGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATa                                                                                                     <  8:222974/149‑1 (MQ=255)                           gacTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAGGTTCCCGcccgtgt                                                                                                                   <  8:258948/130‑5 (MQ=255)                           gacTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAGGTTCCCGcccgtgt                                                                                                                   >  7:258948/1‑126 (MQ=255)                                g‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCGTAGCGCGACAAt                                                                                           >  1:102926/1‑149 (MQ=255)                                    aaTGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATACAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCa                                                                                        <  5:47595/149‑1 (MQ=255)                                     aTGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAGGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCAc                                                                                       <  5:251743/149‑1 (MQ=255)                                                 gAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTca                                                                           >  5:19417/1‑149 (MQ=255)                                                  aaaaTCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTca                                                                           >  6:311152/1‑148 (MQ=255)                                                      tCCACCAATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACAtct                                                                      <  5:284462/149‑1 (MQ=255)                                                              tCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCGTAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGc                                                              <  2:102926/149‑1 (MQ=255)                                                                 ccAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGa                                                                                >  1:124823/1‑128 (MQ=255)                                                                 ccAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTg                                                            >  3:39078/1‑148 (MQ=255)                                                                     gATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTg                                                       >  8:34084/1‑149 (MQ=255)                                                                      aTCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTgg                                                      <  7:34084/149‑1 (MQ=255)                                                                      aTCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTgg                                                      <  3:243512/149‑1 (MQ=255)                                                                      aTCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTgg                                                      >  2:195157/1‑149 (MQ=255)                                                                          aGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCt                                                                             <  4:2505/122‑1 (MQ=255)                                                                          aGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCt                                                                             >  3:2505/1‑122 (MQ=255)                                                                                 cgcCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAActc                                           >  2:132636/1‑149 (MQ=255)                                                                                  gcCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAActct                                          <  3:110472/149‑1 (MQ=255)                                                                                  gcCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAActct                                          >  4:110472/1‑149 (MQ=255)                                                                                        cGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGc                                                    <  2:137153/133‑1 (MQ=255)                                                                                        cGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGc                                                    >  1:137153/1‑133 (MQ=255)                                                                                        cGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAg                                    <  4:39078/149‑1 (MQ=255)                                                                                            gAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTACATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTg                                 <  3:238612/148‑1 (MQ=255)                                                                                                 gAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCt                           >  6:140340/1‑149 (MQ=255)                                                                                                    ggATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGAc                        <  6:1641/149‑1 (MQ=255)                                                                                                          aGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGc                  <  5:140340/149‑1 (MQ=255)                                                                                                          aGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGc                  <  1:132636/149‑1 (MQ=255)                                                                                                            ggCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTCGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCca                >  6:220204/1‑149 (MQ=255)                                                                                                                 aTCTGAGGCCTTGCTTGCACACGGGCTGGAACCTCCCGCCAATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACAt             <  5:311152/147‑1 (MQ=255)                                                                                                                      aGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATAc       <  6:19417/148‑1 (MQ=255)                                                                                                                          cttgcttgCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAgg  >  3:196096/1‑149 (MQ=255)                                                                                                                          cttgcttgCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAgg  >  5:282803/1‑149 (MQ=255)                                                                                                                                                 |                                                                                                                              CCCAAGGCTCGACATTGCGCCATGACGACTGG‑AAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGG  >  NC_002947/4488850‑4489118

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: ‑