Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	AE015451	353,067	A→G	intergenic (+34/+84)	hisF → / ← cbcV	Imidazole glycerol phosphate synthase subunit HisF/choline / betaine / carnitine ABC transporter ‑ ATP binding subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AE015451	353,067	0	A	G	100.0%	77.1 / NA	23	intergenic (+34/+84)	hisF/cbcV	Imidazole glycerol phosphate synthase subunit HisF/choline / betaine / carnitine ABC transporter ‑ ATP binding subunit
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (9/14);  total (9/14)

GGCGAGATCCTGCTGACCAGCATGGACCAGGACGGCATGAAGAACGGCTTCGACCTGGGCGTTACCCGGGCTATCAGTGATGCGCTGGGGATTCCGGTGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCAGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTGCAGTGCCTCACGCATGCCGATGTCGGCGTGCACCACGGTCGGCCTGCGCTCCAGCAGCTCCACATCTTGCCCCGGT  >  AE015451/352776‑353340                                                                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                                                  ggCGAGATCCTGCTGACCAGAATGGACCAGGACGGCATGAAGAACGGCTTCGACCTGGGCGTTACCCGGGCTATCAGTGATGCGCTGGGGATTCCGGTGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGccc                                                                                                                                                                                                                                                                          <  2:286502/301‑1 (MQ=255)    gacaTCCTGCTGAGCAGCATGGACCAGGACGGGATGAAGAACGGCTTCGACCTGGGCGTTACCCGGGCTAGCAGTGATGCGCTGGGGATTCCGGGGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCt                                                                                                                                                                                                                                                                       <  2:143575/298‑1 (MQ=255)                       tGGACCAGGACGGCATGAAGAACGGCTTCGACCTGGGCGTTACCCGGGCTATCAGTGATGCGCTGGGGATTCCGGTGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGAt                                                                                                                                                                                                                                                    <  1:64654/301‑1 (MQ=255)                                aCGGCATGAAGCACGGGTTCGACCTGGGCGTAACCCGGGCTATCGGTGATGCGCTGGGGATTCAGGTGATTGCCTCGGGGGGGGTGTGGAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGTCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTggg                                                                                                                                                                                                                                           <  2:323635/301‑1 (MQ=255)                                 gggaaTGAAGACCGGCTTCGACCTGGGCGTTACCCGGGCTATCAGTGATGCGCTGGGGATTCCGGTGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGa                                                                                                                                                                                                                                          <  2:54230/297‑1 (MQ=255)                                      tGAAGAACGGCTTCGACCTGGGCGTTACCCGGGCTATCAGTGATGCGCTGGGGATTCCGGTGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCTACAGGTTTGCTGAGATTTCTGTGCGCGCggg                                                                                                                                                                                                                                     >  2:675415/1‑301 (MQ=255)                                                                                       ggggATTCCGGTGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACCGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGACGCGGCCACACTTGCTTCAACCGTGGtt                                                                                                                                                                                    >  1:345822/1‑301 (MQ=255)                                                                                             ggcGGTTATTGCCTGGGGGGGGGTGGGTAACCAGGAGCACCGGGAAGACGACAGGATGGAAGGGGATGCCAGGGCGGTGCAGGTGGCCAGCATGTCCCACTTTGGCGAGTACAAAGTGCCGGAGACCAAGGCCTACATGGCTTCGCGCGCGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCACTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGcc                                                                                                                                                                              <  1:250530/299‑1 (MQ=255)                                                                                                            ggggggggTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCACGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGTGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGGTTCAACAGTGGTTCTTGCCGCGCAGCGCGGGGtt                                                                                                                                                               >  2:278815/1‑300 (MQ=255)                                                                                                                                       ggCAGATGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGATTACACAGTGCCGGAGTCCAAGGCCTACATGGCTTCGCGCGGCATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCccac                                                                                                                                    <  1:726631/301‑1 (MQ=255)                                                                                                                                                 aTTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCg                                                                                                                          >  1:573959/1‑301 (MQ=255)                                                                                                                                                   tCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGtt                                                                                                                        <  1:361088/301‑1 (MQ=255)                                                                                                                                                                  cAGCGCGGTGCTGGCGGCCAGCATTTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGTCCGCGAAGCTGCCCCCATTGCTTCAACCGTGGTTCTTGCCGACCAGCGCGTGGTAAAGCTCGGTATCCCCGCGTATCCCCACCACCCTGTCGTTATCCTtcagccctcg                                                                                                         >  1:391259/1‑296 (MQ=255)                                                                                                                                                                   ggcgcGGTGCTGGCTGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGc                                                                                                        <  1:67957/300‑1 (MQ=255)                                                                                                                                                                                 ggcCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTg                                                                                          >  1:673285/1‑301 (MQ=255)                                                                                                                                                                                             ccACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTACCGAGCAGCGCGTGGTAAAGCTCGGTATACCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTg                                                                              >  2:35074/1‑301 (MQ=255)                                                                                                                                                                                              cACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGTGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTGc                                                                             <  1:278920/301‑1 (MQ=255)                                                                                                                                                                                                cTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCTCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGTACCAGCTTGTTGCCCGTTTGagaaatattctgcat                                                                           >  1:21159/1‑287 (MQ=255)                                                                                                                                                                                                      ggAGTACACACGGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCGCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTGCAGTGCCTc                                                                     <  1:106119/300‑1 (MQ=255)                                                                                                                                                                                                                                  aacaactgtctgtggcggttcgtcgTTCGCGGATCCATTAACCGGGGCTGCTTTGCAGCCCTTCGCGGGGACACCCGCTGCAACAGGGTGTCTGGGATCTCTGTGGGGGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTGCAGTGCCTCACGCATGCCGATGTCGGCGTGCACCACg                                         <  2:202054/282‑1 (MQ=255)                                                                                                                                                                                                                                   aCATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGTAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGCGCAGCGCGTGGTAAAACTCGGTATCACCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGTTTGTTGCCGGTTTGATACCGAATCTGCAGTGCCTCACGCATGCCGCTGTCGGCGTGCACCACgg                                        >  1:684453/1‑301 (MQ=255)                                                                                                                                                                                                                                                              gCTGATCCCTTGACCACTGCTGCTTTGCAGGCCTTCGCGGTCACGCCAGCTCCAACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGACGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTGCAGTGCCTCACGCATGCCGATGTCGGCGTGCACCACGGTCGGCCTGCGCTCCAGCAGCTCCACAt             <  1:675705/301‑1 (MQ=255)                                                                                                                                                                                                                                                                         gACCGGGGATGCGTTGCAGCCCTGCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTGCAGTGCCTCACGCATGCCGATGTCGGCGTGCACCACGGTCGGCCTGCGCTCCAGCAGCTCCACATCTTGCCCCGGt  <  2:573714/301‑1 (MQ=255)                                                                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                                                  GGCGAGATCCTGCTGACCAGCATGGACCAGGACGGCATGAAGAACGGCTTCGACCTGGGCGTTACCCGGGCTATCAGTGATGCGCTGGGGATTCCGGTGATTGCCTCGGGGGGGGTGGGTAACCTGCAGCACCTGGCAGACGGCATTCTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCAGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAAGCGGCCCCAATTGCTTCAACCGTGGTTCTTGCCGAGCAGCGCGTGGTAAAGCTCGGTATCCCCGAGTATCCCCACCACCCTGTCGTTATCCTGCAGCACCAGCTTGTTGCCGGTTTGATAACGAATCTGCAGTGCCTCACGCATGCCGATGTCGGCGTGCACCACGGTCGGCCTGCGCTCCAGCAGCTCCACATCTTGCCCCGGT  >  AE015451/352776‑353340

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑