Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009974	1,897,951	G→T	intergenic (‑5729/‑2868)	RPPX_08470 ← / → RPPX_08480	tryptophan synthase subunit beta/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009974	1,897,951	0	G	T	100.0%	44.5 / NA	25	intergenic (‑5729/‑2868)	RPPX_08470/RPPX_08480	tryptophan synthase subunit beta/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (17/8);  total (17/8)

GCAGGCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATATAGACGGTCACACCTTTGAGAACCTGGAACTGGGTGGTGCTGCTTCGGTTCAAGTGACCGACACCACCGACGAAGTAGTGGCCAAGCTGACCGCGACCCCGTCGGTCACCGAAGGGGTGGCAGTCAGCTTGGCCACGACTTCGTCGAGGGTGTCGGTCACTTGAACCGAAGCAGCACCACCCAGTTCCAGGTTCTCAAAGGTGTGACCGTCTATATCCACAGCGGACGTGATGCCCAGACTGATCTGGC  >  CP009974/1897811‑1898099                                                                                                                                             |                                                                                                                                                     gctggCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCg                                                                                                                                            >  1:1105801/4‑151 (MQ=1) gctggCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCg                                                                                                                                            >  1:84166/4‑151 (MQ=1)   tggCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGaa                                                                                                                                          >  2:4821959/2‑151 (MQ=1)   tggCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGaa                                                                                                                                          <  2:3015906/150‑1 (MQ=11)   tggCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGaa                                                                                                                                          >  1:2300553/2‑151 (MQ=1)   tggCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGaa                                                                                                                                          >  2:2622201/2‑151 (MQ=1)      ccAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggc                                                                                                                                       <  1:5033247/151‑2 (MQ=11)      ccAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggc                                                                                                                                       <  1:804753/151‑2 (MQ=11)       cAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcg                                                                                                                                      >  1:1929698/1‑149 (MQ=11)       cAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcg                                                                                                                                      >  2:2407984/1‑149 (MQ=11)       cAGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGGGCTGCTTCGGTTCCAGTGACCGACACCCTCGACGAAGTGCTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcg                                                                                                                                      >  1:5222556/1‑149 (MQ=11)        aGATGAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcgg                                                                                                                                     >  2:4478311/1‑148 (MQ=11)        aGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcgg                                                                                                                                     <  1:3968546/151‑4 (MQ=11)        aGATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcgg                                                                                                                                     >  1:2661301/1‑148 (MQ=11)        aGATAAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcgg                                                                                                                                     >  2:4478527/1‑148 (MQ=11)         gATCAGTCTGGGCATCACGTCCGCTGTGGATGTAGACGGTCACACCTTCGAGAACCTGGAACTGGGCGGTGCTGCTTCGGTTCAAGTGACCGACACCCTCGACGAAGTGGTGGCCAAGCTGACCGCGACCCCTTCGGTCACCGAAggcggg                                                                                                                                    >  1:2926223/1‑147 (MQ=11)                                                                                                                                   tcgcgcCGCCTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagact          >  2:2963249‑M2/2‑67 (MQ=255)                                                                                                                                   ccGCGCCGCCTTCCGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagact          >  2:2883073‑M2/1‑67 (MQ=255)                                                                                                                                    ctcgccgccttcggtgACCGACGGGGTGGCGGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcatccaccgccgagttgatgcccaggctg         >  2:2150171‑M2/8‑66 (MQ=255)                                                                                                                                    ctcgccgccttcggtcACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactg         >  1:1972411‑M2/8‑66 (MQ=255)                                                                                                                                    ctcaccgccttcggtgACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactg         >  1:1145056‑M2/8‑66 (MQ=255)                                                                                                                                    ctcaccgccttcggtgACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactg         >  1:1145091‑M2/8‑66 (MQ=255)                                                                                                                                     tcgccgccttcggtCCCCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactga        >  2:4608584‑M2/7‑65 (MQ=255)                                                                                                                                     tcgccgccttcggtCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactga        >  1:4149835‑M2/7‑65 (MQ=255)                                                                                                                                     tcgccgccttcggtCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactga        >  1:3016210‑M2/7‑65 (MQ=255)                                                                                                                                     tcaccgccttcggtGACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactga        <  2:1423200‑M2/145‑87 (MQ=255)                                                                                                                                     gcaccgccttcggtGACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactga        >  1:5101176‑M2/7‑65 (MQ=255)                                                                                                                                      cgccgccttcggTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgat       >  2:513428‑M2/6‑64 (MQ=255)                                                                                                                                      cgccgccttcggTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgat       >  1:3596502‑M2/6‑64 (MQ=255)                                                                                                                                      cgccgccttcggTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgat       <  1:350059‑M2/146‑88 (MQ=255)                                                                                                                                      cgccgccttcggTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgat       >  2:1042120‑M2/6‑64 (MQ=255)                                                                                                                                      cgccgccttcggTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgccc               >  2:1923361‑M2/6‑64 (MQ=255)                                                                                                                                       gccgccttcgGTGACCGACGGGGTGGCGGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcatccaccgccgagttgatgcccaggctgatc      >  1:175653‑M2/5‑63 (MQ=255)                                                                                                                                       gccgccttcgGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatc      >  2:681653‑M2/5‑63 (MQ=255)                                                                                                                                       gccgccttcgGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatc      <  1:2270975‑M2/147‑89 (MQ=255)                                                                                                                                       gccgccttcgGGCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatc      >  2:1540849‑M2/5‑63 (MQ=255)                                                                                                                                        ccgccttcGGTGACCGACGGGGTGGCGGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcatccaccgccgagttgatgcccaggctgatct     <  1:3034793‑M2/148‑90 (MQ=255)                                                                                                                                         ggccttCGGTGACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    >  2:3120409‑M2/3‑61 (MQ=255)                                                                                                                                         cgccttCGGTGACCGACGGGGTGGGGGTCAGCTTGGCCACGACTTCGTCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctagaacgcagcaccagtggcatccaccgccgagttgatgcccaggctgatctg    >  2:1737488‑M2/3‑61 (MQ=255)                                                                                                                                         cgccttCGGTGACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    >  1:4780255‑M2/3‑61 (MQ=255)                                                                                                                                         cgccttCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    <  1:4811028‑M2/149‑91 (MQ=255)                                                                                                                                         cgccttCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    <  1:3350427‑M2/149‑91 (MQ=255)                                                                                                                                         cgccttCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    >  1:3905147‑M2/3‑61 (MQ=255)                                                                                                                                         cgccttCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    >  2:4605592‑M2/3‑61 (MQ=255)                                                                                                                                         cgccttCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    <  1:988827‑M2/149‑91 (MQ=255)                                                                                                                                         cgccttCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctg    <  1:3852933‑M2/149‑91 (MQ=255)                                                                                                                                          gcctTCGGTGACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcac                                            >  2:2386588‑M2/2‑60 (MQ=255)                                                                                                                                          gcctTCGGTGACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcac                                            <  1:2386588‑M2/109‑51 (MQ=255)                                                                                                                                          gcctTCGGTGACCGACGGGGTGGCAGTCAGCTTGGCCACGACTGCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctgg   >  2:3556747‑M2/2‑60 (MQ=255)                                                                                                                                          gcctTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctgg   <  1:875934‑M2/150‑92 (MQ=255)                                                                                                                                          gcctTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctgg   <  1:1570322‑M2/150‑92 (MQ=255)                                                                                                                                          gcctTCGGTAACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctgg   <  1:3249591‑M2/150‑92 (MQ=255)                                                                                                                                           ccTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctggc  <  2:132208‑M2/151‑93 (MQ=255)                                                                                                                                           ccTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctggc  >  2:454307‑M2/1‑59 (MQ=255)                                                                                                                                           ccTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctggc  >  2:2668186‑M2/1‑59 (MQ=255)                                                                                                                                           ccTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctggc  <  2:5093063‑M2/151‑93 (MQ=255)                                                                                                                                           ccTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctggc  <  2:131934‑M2/151‑93 (MQ=255)                                                                                                                                           ccTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgatctggc  >  1:4076817‑M2/1‑59 (MQ=255)                                                                                                                                           ccTTCGGTCACCGACGGGGTGGCAGTCAGCTTGGCCACGACTTCATCGAGGGTGTCGGTgacatccactttcgcggcaccgcccaactcgaggttctcgaacgcagcaccagtggcgtcaaccgccgagttgatgcccagactgacctggc  <  2:1960693‑M2/151‑93 (MQ=255)                                                                                                                                             |                                                                                                                                                     GCAGGCCAGATCAGTCTGGGCATCACGTCCGCTGTGGATATAGACGGTCACACCTTTGAGAACCTGGAACTGGGTGGTGCTGCTTCGGTTCAAGTGACCGACACCACCGACGAAGTAGTGGCCAAGCTGACCGCGACCCCGTCGGTCACCGAAGGGGTGGCAGTCAGCTTGGCCACGACTTCGTCGAGGGTGTCGGTCACTTGAACCGAAGCAGCACCACCCAGTTCCAGGTTCTCAAAGGTGTGACCGTCTATATCCACAGCGGACGTGATGCCCAGACTGATCTGGC  >  CP009974/1897811‑1898099

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: ‑