Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_pgi	1,529,203	C→A	pseudogene (1302/2037 nt)	rhsE →	pseudogene, Rhs family

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_pgi	1,529,203	0	C	A	100.0%	28.6 / NA	16	pseudogene (1302/2037 nt)	rhsE	pseudogene, Rhs family
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (8/8);  total (8/8)

ATACACACCGGCGCGAAAAGTTCATTTTTACCACTGCGACCACCGGGGCCTGCCGCTGGCGCTCATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAGTCG  >  NC_000913_3_pae_pgi/1529155‑1529347                                                 |                                                                                                                                                 aTACACACCGGCGCGAAAAGCCCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGATCATCAGCGCAGACGGCAATCCGGCGGGCCGCGGCGAGTATGATGAATGGGGCAACCAGCTCAAAGAGGAGACCCCGCATCACCTGcc                                             >  2:857327/1‑149 (MQ=11)       acCGGCGCGAAAAGCTCATCTTTATCACTGCGAGCAGCGGGGACTGCCGCTGGCGCTTATCAGGGAAGACGGCAATACGGCGTAGCGCGGGGAGTATGCTTAATGGGGCAACCAGCTGAAAGAGGAGAAACAGCATGACCTGCACCAGcg                                       >  2:462893/1‑149 (MQ=11)              cgAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGt                                <  2:576613/150‑1 (MQ=11)              cgAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGATTATCACCTAAGACGGCCATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGt                                >  1:192609/1‑150 (MQ=11)               gAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTc                               >  1:254730/1‑150 (MQ=11)                    gctaatctttATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTGTCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCa                          <  1:747189/143‑1 (MQ=14)                         tctttATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGgca                     <  1:512846/148‑1 (MQ=255)                          ctttATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGGGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGgcag                    >  1:265239/2‑150 (MQ=11)                                cACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGGCAGCAGCat              <  2:385316/150‑1 (MQ=255)                                   tGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGGAGACGGCAATACGGCGTGGCGAGGGGGGTATGATGAATGGGGCAACCAGCTTAATGGGGAGAACCCGCATCACCTGCACCAGCCGTACCGTGTGCCAGGGGAGGAGCatgat           >  2:213466/1‑150 (MQ=14)                                      gACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATgag        <  2:666692/150‑1 (MQ=255)                                        ccaccGGGGACTGCCGCCGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATgagga      <  1:403615/150‑1 (MQ=255)                                         caccGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGCATGGGGCAACCAGCTTAATGCGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGAGCAGCACCATGGTcaggca     >  2:13092/1‑148 (MQ=14)                                         caccGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCt                                                                        <  1:781663/83‑1 (MQ=255)                                         caccGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCt                                                                        >  2:781663/1‑83 (MQ=255)                                            cGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGAGGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAGTCg  <  1:278948/150‑1 (MQ=255)                                                 |                                                                                                                                                 ATACACACCGGCGCGAAAAGTTCATTTTTACCACTGCGACCACCGGGGCCTGCCGCTGGCGCTCATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCACCTGCACCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAGTCG  >  NC_000913_3_pae_pgi/1529155‑1529347

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑