Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,425,688	C→A	H57N (CAC→AAC)	priB →	primosomal replication protein N

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,425,688	0	C	A	92.9%	29.8 / NA	14	H57N (CAC→AAC)	priB	primosomal replication protein N
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base A (4/9);  total (5/9)
Fisher's exact test for biased strand distribution p-value = 3.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01

GAGCGTCGCGATGATTTCGCAAACGAAACCGCTGATGATGCTGAAGCTGGGGATTCTGAAGAGTAATTTCTGATGACCAACCGTCTGGTGTTGTCCGGCACCGTGTGCAGGGCTCCCCTTCGAAAGGTCAGTCCATCAGGAATTCCTCACTGCCAGTTCGTGCTTGAGCATCGTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTATTGTTAGCGGACACGAAAACCAGGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAACCGTTCAGGGGTTCATTTCATGCCACAAGGCAAAGAACGGACTGAGCAAAATGGTTTTGCATGCCGAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAG  >  NC_000913/4425448‑4425911                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                gAGCGTCGCGATGATTTCGCAAACGAAACCGATGATGATGCTGAAGCTGGGGATTCTGAAGAGTAATTTCTGATGACCAACCGTCTGGTGTTGTCCGGCACCGTGTGCAGGGCTCCCCTTCGAAAGGTCAGTCCATCAGGAATTCCTCACTGCCAGTTCGTGCTTGAGCATCGTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTATTGTTAGCGGAAACGaaaaac                                                                                                                                                                                                                        >  1:172103/1‑248 (MQ=255)                                                    gATTCTGAAGAGGAATTTCTGAGGACCAACCGTCTGGTGTTGGCCGGCCCCGTGTGCAGGGCTCCCCGTCGAAAGGTCAGTCCATCAGTAATTCCTCACTGCCAGTTCGTGCTTGAGCATCGTGCGGTGCAGGAGGAAGCCGGCGTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTATTGTTAGCTGAAACGAAAAACAGGCCATTACTCACAGTATAACGGTCgg                                                                                                                                                                                            <  1:343398/227‑1 (MQ=255)                                                                                     cTGGTGTTGTCCGGCACCGTGTGCAGGGCTCCCCTTCGAAAGGTCAGTCCATCAGGAAATCCTCACTGCCAGTTCGTGCTTGAGCATCGTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTAGTGTTAGCGGAAACGAAAAACATGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAAcc                                                                                                                                                                               <  1:491647/207‑1 (MQ=255)                                                                                                  gCACCGTGTGCAGGGCTCCCCTTCGAAAGGTCAGTCCATCAGGAAGTCCTCACTGTCAGGTCGTGATTGAGCATCGTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTAGTGTTAGCGGAAACGAAAAACAGGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAACCGTTCAGGGGTTCATTGCATg                                                                                                                                                           <  1:152/214‑1 (MQ=255)                                                                                                   cACCGTGTGCAGGGCTCCCCTTCGAAAGGTCAGTCCATCAGGAATTCCTCACTGCCAGTTCGTGCTTGAGCATCGTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTATTGTTAGCGGAAACGAAAAACAGGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAACCGTTCAGGGGTTCATTTCATGCCACAAGGCAAAGAACGGACTGAGCAAAATGGTTTTGc                                                                                                                     <  1:83528/251‑1 (MQ=255)                                                                                                                        tCGAAAGGTCAGTCCATCAGGAATTCCTCACTGCAAGTCCGTGCTTGAGCATAGTTATGTGCAGGAGGAAGCAGGCTTTCACAGGCCGGCGTGGTGTCAAATACCCGTTATTGTTAGAGGAAACGAAAAACAGGCCCTTACTCACAGTATAACGGTAGGCAGTCGAATAACCGTTCAGGGGTTCCTTTCCTGCCACAAGGCAAAGa                                                                                                                                             >  1:256333/1‑206 (MQ=255)                                                                                                                               gTCAGTCCATCAGGAATTCCTCACTGCCAGTTCGTGCTTGAGCATCGTTCTGTGCAGGAGGAAGCCGGCTGTCACCGGCAGGCGTGGTGTCAAATGCCCGTTATTGTTAGCGGAAACGAAAAACAGGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAACCGTTCAggg                                                                                                                                                                       <  1:449673/173‑1 (MQ=255)                                                                                                                                                                          aTCGTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCGGGGTGTCAAATGCCCGTTATTGTTAGCGGAAACGAAAAACAGGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAACCGTTCAGGGGTTCATTTCATGCCACAAGGCAAAGAACGGACTGAGCAAAATGGTTTTGCATGCCGAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGc                                                   <  1:231276/246‑1 (MQ=255)                                                                                                                                                                             gTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCTTGGTGTCAAATGCCCGTTATTGTTAGCGGAAACGAAAAACAGGCCATTACTCACAGTATAACGGTCGGCATTCGCATAACCGTTCAGGGGTTCATTTCATGCCACAAGGCAAAGAACGGACTGAGCAAAATGGTTTTGCATGCCGAGc                                                                                                            <  1:291693/186‑1 (MQ=255)                                                                                                                                                                                    gCAGGAGGAAGCCGGCTTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTATTGTTAGCGGACACGAAAAACAGGCCATTACTCACAGTATAACGGACGGCAGTCGCATAACCGTTCAGGGGTTCATTTCATGCCACAAGGCAAAGAACGGACTGAGCAAAATGGTTTTGCATGCCGAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTc                                    >  1:446558/1‑251 (MQ=255)                                                                                                                                                                                                                     gtgtCAAATGCGCGTTATTGTTAGAGGAAACGAAAAACAGGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAACCGTTCAGGGGTTCATTTCATg                                                                                                                                                           >  1:167165/1‑99 (MQ=255)                                                                                                                                                                                                                                       tGTTANCGGCANCNNAAAACAGGCCTTTACTCACNGTATAACGGTCGGCANTCGCNTAACCNttn                                                                                                                                                                           >  2:199279/1‑64 (MQ=255)                                                                                                                                                                                                                                       tGTTAGCGTAAACTAAAAACAGGCCATTACTCACAGGATAACGGTCGGCAGTCGCATAACCGTTCAg                                                                                                                                                                         <  1:199279/67‑1 (MQ=255)                                                                                                                                                                                                                                          tAGCGGAAACGAAAAACAGGCCATTATGCACATGATAACGGTCGGCAGTCGCATAACCGTTCAGGGGTTCATTTCATGCCACAAGGCAAAGAACGGACTGAGCAAAATGGTTTTGCATGTCGTGCAGATTGAATTGAGAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCGGCCGTGGCAGCGCGTAATGCGGTCAAGAAAGTGACTATAAAg  <  1:419988/231‑1 (MQ=255)                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                GAGCGTCGCGATGATTTCGCAAACGAAACCGCTGATGATGCTGAAGCTGGGGATTCTGAAGAGTAATTTCTGATGACCAACCGTCTGGTGTTGTCCGGCACCGTGTGCAGGGCTCCCCTTCGAAAGGTCAGTCCATCAGGAATTCCTCACTGCCAGTTCGTGCTTGAGCATCGTTCTGTGCAGGAGGAAGCCGGCTTTCACCGGCAGGCGTGGTGTCAAATGCCCGTTATTGTTAGCGGACACGAAAACCAGGCCATTACTCACAGTATAACGGTCGGCAGTCGCATAACCGTTCAGGGGTTCATTTCATGCCACAAGGCAAAGAACGGACTGAGCAAAATGGTTTTGCATGCCGAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAG  >  NC_000913/4425448‑4425911

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑