Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,171,796	A→G	9.2%	intergenic (+331/+72)	PP_5484 → / ← PP_1924	hypothetical protein/phosphinothricin N‑acetyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,171,796	0	A	G	9.2%	141.3 / 3.9	54	intergenic (+331/+72)	PP_5484/PP_1924	hypothetical protein/phosphinothricin N‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base A (25/24);  new base G (3/2);  total (28/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01

TCAGCTGTCGACAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAGGCCTTCGTCACCGAAATCAAAC  >  NC_002947/2171651‑2171943                                                                                                                                                   |                                                                                                                                                     tCAGCTGTCGACAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGCCAGCTTTGGGTCGATTGCAGcc                                                                                                                                                   >  3:232602/1‑149 (MQ=255)   aGCTGTCGACAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATAAAGGGCAGCTTTGGGTCGATTGCAGCCgg                                                                                                                                                 >  7:250232/1‑149 (MQ=255)       gTCGACAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCAc                                                                                                                                             >  7:63148/1‑149 (MQ=255)       gTCGACAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTATGGGTCGAATGCGGCCTGTcgt                                                                                                                                             >  3:77401/1‑147 (MQ=255)          gACAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGAATGCGGCCTGTcgtgac                                                                                                                                          >  6:108817/1‑144 (MQ=255)           aCAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGa                                                                                                                                           >  7:201489/1‑147 (MQ=255)            cAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAg                                                                                                                                       <  7:7287/149‑1 (MQ=255)            cAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAg                                                                                                                                       <  8:63148/149‑1 (MQ=255)                  gtggtACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCa                                                                                                                                 >  8:41205/1‑149 (MQ=255)                      tACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCg                                                                                                                             <  1:36851/149‑1 (MQ=255)                        ccGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTATGGGTCGAATGCGGCCTGTCGTGA‑CCGGCTGCAATCGAc                                                                                                                           <  4:77401/149‑1 (MQ=37)                          ggTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAACCCGGCTGCATAGCGCAGCCA‑GGGTTGGTGGTTAGCCGCCCCCCCAAAACGGCCAGCTTTGGTACGATTGCACCGGGTCCCGA‑CAGGCAGAATTGGAcc                                                                                                                          >  6:59861/1‑148 (MQ=255)                          ggTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGAccc                                                                                                                         <  8:86282/149‑1 (MQ=255)                                     ccgggTCAGGGGTTTGCGGTAAGGGACGGCCCCCCCAAACCGTCTGCATAGCGCATCCA‑GGGTTGTTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCtt                                                                                                              <  8:250232/146‑1 (MQ=255)                                        ggTGAGGCGTTTGCGGTTAGGGACGGCCCCCGCAAACGGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTcg                                                                                                           <  4:232602/149‑1 (MQ=255)                                        ggTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGAATGCGGCCTGTCGTGA‑CCGGCTGCAATCGACCCAAAGCTGcccgtga                                                                                                           <  5:108817/149‑6 (MQ=25)                                            aGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCgg                                                                                                        >  5:194986/1‑148 (MQ=255)                                            aGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGa                                                                                                       <  8:201489/149‑1 (MQ=255)                                               cGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGa                                                                                                    <  5:212834/149‑1 (MQ=255)                                                    gCGGTAAGGGACGG‑CCCCCCAAACCCGCTTCATACCGCATCCA‑CGGTTTGAGGGTAGCCCGCCACCCATCACGGGCACCATTGGGTACATTGCAGCCGGGCACGA‑ACGGGCCCATTTGCACAATATCTAGCTTAGTCGGAAGACAGTc                                                                                               >  8:249127/1‑148 (MQ=255)                                                                gatcaccccAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGATCAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTgg                                                                                    <  1:241709/144‑1 (MQ=255)                                                                  cccccccAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGAc                                                                                 >  4:251641/1‑149 (MQ=255)                                                                   ccccccAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGAcc                                                                                <  1:261723/149‑1 (MQ=255)                                                                     ccccAAACCGGCTGCATAGCGCATCCAGGGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTc                                                                                                                              >  1:179474/1‑102 (MQ=255)                                                                     ccccAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTc                                                                                                                              <  2:179474/101‑1 (MQ=255)                                                                      cccAAACCGGCTGCATAGCGGCTCCA‑GGGTTGGTGGTTAGCGGCCCCCCCATCACGGGCAGCTTTGGGTGGATTGCGGGCGGTGCCGA‑CAGGCGGCGTTCGGCCCATAGGTGCCGGTCGCGGAAGCCAGTCCAACTCCCTGGGagggcg                                                                             >  2:241709/1‑144 (MQ=255)                                                                       ccAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCctc                                                                             >  2:120178/1‑148 (MQ=255)                                                                         aaaCCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTcg                                                                                                           >  8:191679/1‑116 (MQ=255)                                                                         aaaCCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTcg                                                                                                           <  7:191679/116‑1 (MQ=255)                                                                              ggCTGCATAGCGCAACCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAgg                                                                     >  2:40911/1‑149 (MQ=255)                                                                                    aTAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTgg                                                               <  7:41205/149‑1 (MQ=255)                                                                                         gcATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGAttt                                                          <  6:194986/149‑1 (MQ=255)                                                                                          cATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTg                                                         <  1:120178/149‑1 (MQ=255)                                                                                          cATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTg                                                         <  5:59861/149‑1 (MQ=255)                                                                                          cATCCA‑GGGGTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTg                                                         <  2:260086/149‑1 (MQ=255)                                                                                             ccA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGa                                                      >  1:158188/1‑149 (MQ=255)                                                                                                  ggTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTgg                                                        >  5:147154/1‑143 (MQ=255)                                                                                                  ggTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTgg                                                        <  6:147154/143‑1 (MQ=255)                                                                                                    ttGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAgg                                                  >  2:149796/1‑147 (MQ=255)                                                                                                             aGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATg                                        <  3:251641/148‑1 (MQ=255)                                                                                                               ccgccCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGCCCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCTCTGGGACCCTCTAACGAGGCACTGGGATTGGGGATAGGAAGCCTATTGGAg                                     >  4:206700/1‑149 (MQ=255)                                                                                                               ccgccCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGc                                              >  3:223844/1‑140 (MQ=255)                                                                                                               ccgccCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGc                                              <  4:223844/140‑1 (MQ=255)                                                                                                               ccgccCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAg                                     >  2:101382/1‑149 (MQ=255)                                                                                                                 gccCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGcc                                   >  4:216095/1‑149 (MQ=255)                                                                                                                 ccccccccATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTAGACCCATAGCTGCCTATCGCGGAAGACAGTCAAACTCACTGGGACCATCTAACGAGGCACAGGGATATGGGATAGGAAGCCTAATCGAGc                                    >  8:186067/2‑148 (MQ=255)                                                                                                                                gCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATgg                                       <  7:190679/130‑1 (MQ=255)                                                                                                                                gCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATgg                                       >  8:190679/1‑130 (MQ=255)                                                                                                                                          gTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAGGCCTTCGTCACCg           >  6:196107/1‑148 (MQ=255)                                                                                                                                               ttGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAg                        >  4:86527/1‑130 (MQ=255)                                                                                                                                               ttGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAg                        <  3:86527/130‑1 (MQ=255)                                                                                                                                               ttGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAGGCCTTCGTCACCGAAATCa     <  1:149796/149‑1 (MQ=255)                                                                                                                                                  cAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAGGCCTTCGTCACCGAAATCaaa   <  2:158188/148‑1 (MQ=255)                                                                                                                                                  cAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAGGCCTTCGTCACCGAAATCAAAc  >  1:43982/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                     TCAGCTGTCGACAGCTGGTGGTACCGGTTGACCGTAACCGGTCAGGCGTTTGCGGTAAGGGACGGCCCCCCCAAACCGGCTGCATAGCGCATCCA‑GGGTTGGTGGTTAGCCGCCCCCCCATCACGGGCAGCTTTGGGTCGATTGCAGCCGGTCACGA‑CAGGCCGCATTCGACCCATAGCTGCCTTTCGCGGAAGACAGTCAAACTCACTGGGACCCTCTAACGAGGCACTGGGATTTGGGATAGGAAGCCTAATGGAGCCTCGGGGTGAAGGCCTTCGTCACCGAAATCAAAC  >  NC_002947/2171651‑2171943

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: ‑