Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,138,575	A→C	13.9%	D25A (GAC→GCC)	PP_3643 →	oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,138,575	0	A	C	13.9%	81.3 / 8.8	36	D25A (GAC→GCC)	PP_3643	oxidoreductase
Reads supporting (aligned to +/- strand):  ref base A (19/12);  new base C (2/3);  total (21/15)
Fisher's exact test for biased strand distribution p-value = 6.30e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.84e-01

GGTATACCATCAGACACATCAACGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCATTCACCTGC  >  NC_002947/4138436‑4138718                                                                                                                                             |                                                                                                                                                 ggTATACCATCAGACACATCAACGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACgg                                                                                                                                         <  1:212563/149‑1 (MQ=255)   tataCCATCAGACACATCAACGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCt                                                                                                                                       <  6:203921/149‑1 (MQ=255)                acaTCAACGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGCCGACGACCGAGCCGTCGT‑CGTCCt                                                                                                                         <  4:94627/149‑1 (MQ=255)                acaTCAACGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCt                                                                                                                         <  5:54829/149‑1 (MQ=255)                  aTCAACGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGa                                                                                                                       >  6:349498/1‑149 (MQ=255)                  aTCAACGATAAAAACCGCGGACCACCCCAGCCCTTCAGAGGTACTCCCGATGATCGAAGCAACTGTCTACAAGAACGTA‑CTGGGCTCCTTCCCCTCCGGCGAAACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGa                                                                                                                       >  5:74159/1‑149 (MQ=255)                  aTCAACGATAAAAACCGCGGACCACAGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGa                                                                                                                       >  3:59035/1‑149 (MQ=255)                     aaCGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGCCGACGACCGAGCCGTCGT‑CGTCCTgggtg                                                                                                                    <  3:261079/149‑5 (MQ=255)                              aaCCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCt                                                                                                           >  7:77697/1‑149 (MQ=255)                                                   ttCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGCCGACGACCGAGCCGtcgt‑cgtc                                                                                                                           <  1:270819/112‑3 (MQ=255)                                                   ttCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGCCGACGACCGAGCCGtcgt‑cgtc                                                                                                                           >  2:270819/1‑110 (MQ=255)                                                         ggTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCcgccgc                                                                                <  8:77697/149‑1 (MQ=255)                                                                ccGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCt                                                                         >  5:213968/1‑149 (MQ=255)                                                                ccGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCt                                                                         >  8:234521/1‑149 (MQ=255)                                                                ccGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCt                                                                         >  7:247234/1‑149 (MQ=255)                                                                  gatgatCGACGCAACTGTCTACAAGAACGTTGCTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGCCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTg                                                                        >  1:211579/1‑149 (MQ=255)                                                                       tCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGTCCGGCCTGACCGCCAGCGCCTTCtcctcc                                                                                                   <  1:190134/117‑1 (MQ=255)                                                                       tCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCtcctcc                                                                                                   >  2:190134/1‑116 (MQ=255)                                                                              aaCTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAAc                                                            >  3:263843/1‑148 (MQ=255)                                                                                gtGTCTACAAGCCGCTT‑CGGGGCGCCTCCCCGCCGGGCGTTACCGTCTTCCCCACCCCGCACCACGAGGGCTCGGTCGT‑GGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTac                                                         <  6:213968/148‑1 (MQ=25)                                                                                cTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTac                                                         <  4:263843/149‑1 (MQ=255)                                                                                      aCAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTcc                                                   >  7:237189/1‑149 (MQ=255)                                                                                        aaGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGa                                                 <  2:211579/149‑1 (MQ=255)                                                                                            aCGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTc                                              <  4:59035/148‑1 (MQ=255)                                                                                                             cccGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTac                                                         >  2:99885/1‑121 (MQ=255)                                                                                                             cccGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTac                                                         <  1:99885/121‑1 (MQ=255)                                                                                                              ccGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTAGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATc                              >  5:274793/1‑147 (MQ=255)                                                                                                                gTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAg                           >  3:319219/1‑148 (MQ=255)                                                                                                                     gCGTTACCGTCATCACCCCCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGCCCGCCAGCGCCTTCTCCTCCCTGTCGAGGGCCCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAg                     >  6:101842/1‑149 (MQ=255)                                                                                                                            cGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTg              >  1:9127/1‑149 (MQ=255)                                                                                                                                 tcaCCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCAtt         <  8:237189/149‑1 (MQ=255)                                                                                                                                 tcaCCACCCAGGACGACAACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCAtt         >  5:271521/1‑149 (MQ=255)                                                                                                                                  caccacCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCAtt         >  8:242682/1‑148 (MQ=255)                                                                                                                                    ccaccCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCATTCAc      <  8:247234/149‑1 (MQ=255)                                                                                                                                     caccCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCATTCAcc     >  6:145532/1‑149 (MQ=255)                                                                                                                                        tcAGGCCGACGACCGAGCCGTCGT‑CGTCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCTAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCATTCACctgc  >  1:302090/2‑149 (MQ=37)                                                                                                                                             |                                                                                                                                                 GGTATACCATCAGACACATCAACGATAAAAACCGCGGACCACCGCAGCCCTTCAGAGGTACTCCCGATGATCGACGCAACTGTCTACAAGAACGTT‑CTGGGCTCCTTCCCGTCCGGCGTTACCGTCATCACCACCCAGGACGACGACGGCTCGGTCGT‑CGGCCTGACCGCCAGCGCCTTCTCCTCCCTGTCGATGGACCCGCCGCTGGTGCTGTTCTGCCCCAACTACACCTCCGACTCCTACCCGGTACTGATCAAGCAGAAGCGCTTTGCCATTCACCTGC  >  NC_002947/4138436‑4138718

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑