Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,309,992	G→A	65.9%	noncoding (2568/2902 nt)	PP_23SG ←	23S ribosomal RNA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,309,992	0	G	A	65.9%	‑3.3 / 35.6	44	noncoding (2568/2902 nt)	PP_23SG	23S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base G (5/10);  new base A (14/15);  total (19/25)
Fisher's exact test for biased strand distribution p-value = 5.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCGGCAATGCCACTGGCGTGACAACCGGAACACCAGAGGTTCGTCCACTCCGGTCCTCTCGTACTAGGAGCAGCCCCTCTCAAATCTCAAACGTCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTAAACCCAGCTCGCGTACCACTTTAAATGGCGAACAGCCATACCCTTGGGACCGGCTTCAGCCCCAGGATGTGATGAGCCGACATCGAGGTGCCAAACACCGCCGTCGAT  >  NC_002947/5309853‑5310093                                                                                                                                            |                                                                                                      cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             >  1:154373/7‑150 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             <  1:836172/144‑1 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             <  1:8223104/144‑1 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             >  1:8143102/7‑150 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             <  2:3332196/144‑1 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             >  2:5408710/7‑150 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             >  1:4162928/7‑150 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             >  2:5842217/7‑150 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             >  2:5946123/7‑150 (MQ=0) cctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAcc                                                                                             >  2:7255437/7‑150 (MQ=0) ccagcgaTGCCTTTGGCAAGACAACTGGTACACCAGCGGTGCGTCCATCCCGGTCCTCTCGTACTAAGGACAGCTCCTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTAcc                                                                                             >  2:281772/7‑150 (MQ=0) ccagcgaTGCCTTTGGCAAGACAACTGGTACACCAGCGGTGCGTCCATCCCGGTCCTCTCGTACTAAGGACAGCTCCTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTAcc                                                                                             >  1:1469488/7‑150 (MQ=0)  ctgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAccg                                                                                            >  1:4177393/6‑149 (MQ=0)   tgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAccgc                                                                                           <  2:7050878/146‑3 (MQ=0)   tgctaTGCCGTTGGCACGACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTAccgc                                                                                           >  1:852099/5‑148 (MQ=0)   agcgaTGCCTTTGGCAAGACAACTGGTACACCAGCGGTGCGTCCATCCCGGTCCTCTCGTACTAAGGACAGCTCCTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTAccgc                                                                                           <  1:410333/146‑3 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  2:7153257/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  2:3842006/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  2:8408638/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  2:9123975/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 >  1:1676274/8‑150 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  1:7953280/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 >  1:7857267/8‑150 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  1:6860371/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  1:2800670/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGc                                                                                 <  1:3337634/143‑1 (MQ=0)             ttggcacgACAACAGGTCCACCAGAGATACGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCACTTTAACTGGc                                                                                 <  2:2572490/143‑1 (MQ=0)                           ggtacacCAGCGGTGCGTCCATCCCGGTCCTCTCGTACTAAGGACAGCTCCTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTAAACCCAGCTCGCGTACCACTTTAAATGGCGAACAGCCATAccc                                                                   >  2:8880314/4‑150 (MQ=1)                                    gagatacGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGCGAACAGCCATACCCTTGGGAcct                                                          <  2:3603552/144‑2 (MQ=0)                                    gagatacGTCCATCCCGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGAAGATAGGGACCGAACTGTCTCACGACGTTCAGAACCCAACTCACGAACCGCTTTAAATGGCGAACAGCCATACCCTAGGGAcct                                                          >  2:5199012/7‑149 (MQ=0)                                            tccatcccGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGCGAACAGCCATACCCTTGGGACCTGCTCCAGc                                                  >  2:1811965/7‑150 (MQ=0)                                            tccatcccGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGCGAACAGCCATACCCTTGGGACCTGCTCCAGc                                                  <  2:8865178/144‑1 (MQ=0)                                            tccatcccGGTCCTCTCGTACTAGGGACAGATCCTATCAATATTCCTACACCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAACTCACGTACCGCTTTAAATGGCGAACAGCCATACCCTTGGGACCTGCTCCAGc                                                  >  2:1812161/7‑150 (MQ=0)                                                ctacGGTCCTCTCGTACTAGGAGCAGCCCCTCTCAAATCTCAAACGTCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTAAACCCAGCTCGCGTACCACTTTAAATGGCGAACAGCCATACCCTTGGGACCGGCTTAAGCCCCa                                              <  2:7921664/147‑1 (MQ=1)                                                           tcttACTAGGAGCAGCCCATCTCAAATCTCAAACGTCCACGGCAGATAGGGACCGAACTGACTAACGAAGTTCAAAACACAGATCTCGTACCACTATAAATGGAGAACAGCCATACCCTTGGGACCGGATTCAGCCCCAGGATGtgatga                                   >  2:6164102/4‑150 (MQ=1)                                                                         gctccTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTACCGCTTTAATGGGCGAACAGCCCAACCCTTGGGACCGACTACAGCCCCAGGATGCGATGAGCCGACATCGAGGt                     <  1:5103618/147‑1 (MQ=1)                                                                         gctccTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTACCGCTTTAATGGGCGAACAGCCCAACCCTTGGGACCGACTACAGCCCCAGGATGCGATGAGCCGACATCGAGGt                     <  2:4924346/147‑1 (MQ=1)                                                                         gctccTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTACCGCTTTAATGGGCGAACAGCCCAACCCTTGGGACCGACTACAGCCCCAGGATGCGATGAGCCGACATCGAGGt                     <  2:8387243/147‑1 (MQ=1)                                                                         gctccTCTCAAATTTCCTACGCCCACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTACCGCTTTAATGGGCGAACAGCCCAACCCTTGGGACCGACTACAGCCCCAGGATGCGATGAGCCGACATCGAGGt                     <  2:4924099/147‑1 (MQ=1)                                                                                 cacatctcaaaCGTCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTAAACCCAGCACGCGTACCCCTTTAAATGGCGAACAGCCATACCCTTGGGACCGGCTTCAGCCCCAGGATGTGATGAGCCGACATCGAGGTGCCAAaca             <  2:1039809/147‑1 (MQ=0)                                                                                         aatcGTCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTAAACCCAGCTCGCGTACCACTTTAAATGGCGAACAGCCATACCCTTGGGACCGGCTTCAGCCCCAGGATGTGATGAGCCGACATCGAGGTGCCAAACACCGCCGTc     >  1:3309900/4‑150 (MQ=1)                                                                                            cgcccACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTACCGCTTTAATGGGCGAACAGCCCAACCCTTGGGACCGACTACAGCCCCAGGATGCGATGAGCCGACATCGAGGTGCCAAACCTCCCCGTCGat  <  1:3486470/147‑1 (MQ=1)                                                                                            cgcccACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTACCGCTTTAATGGGCGAACAGCCCAACCCTTGGGACCGACTACAGCCCCAGGATGCGATGAGCCGACATCGAGGTGCCAAACCTCCCCGTCGat  <  1:2846902/147‑1 (MQ=1)                                                                                            cgcccACGACGGATAGGGACCGAACTGTCTCACGACGTTCTGAACCCAGCTCGCGTACCGCTTTAATGGGCGAACAGCCCAACCCTTGGGACCGACTACAGCCCCAGGATGCGATGAGCCGACATCGAGGTGCCAAACCTCCCCGTCGat  <  1:2153106/147‑1 (MQ=1)                                                                                                                                            |                                                                                                      CCGGCAATGCCACTGGCGTGACAACCGGAACACCAGAGGTTCGTCCACTCCGGTCCTCTCGTACTAGGAGCAGCCCCTCTCAAATCTCAAACGTCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTAAACCCAGCTCGCGTACCACTTTAAATGGCGAACAGCCATACCCTTGGGACCGGCTTCAGCCCCAGGATGTGATGAGCCGACATCGAGGTGCCAAACACCGCCGTCGAT  >  NC_002947/5309853‑5310093

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑