Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	732,494	C→T	20.0%	D677D (GAC→GAT)	clpB →	chaperone protein ClpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	732,494	0	C	T	20.0%	49.5 / 7.5	25	D677D (GAC→GAT)	clpB	chaperone protein ClpB
Reads supporting (aligned to +/- strand):  ref base C (12/8);  new base T (2/3);  total (14/11)
Fisher's exact test for biased strand distribution p-value = 6.23e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.23e-01

GAAGCACTCCGTCGCGCGCCTGATCGGTGCACCACCAGGCTATGTAGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGCAACACCGTGATCGTGATGACCTCCAA  >  NC_002947/732380‑732619                                                                                                                   |                                                                                                                              gaAGCACTCCGTCGCGCGCCTGATCGGTGCACCACCAGGCTATGTAGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCg                                                                                                          <  1:348743/136‑1 (MQ=255) gaAGCACTCCGTCGCGCGCCTGATCGGTGCACCACCAGGCTATGTAGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCg                                                                                                          <  2:15544/136‑1 (MQ=255)                       attggTGCACCTCCCGGTTATGTCGGCTATGAAGAGGGTGGCGTTCTGACGGAAGCTGTGCGTCGCAGACCATATCAGGTGATCCTGTTCGATGAGATCGAAAAGGCGCATCCGGATGTGTTCAACGtgctgctgc                                                                                    <  2:508314/133‑1 (MQ=255)                               accaccAGGCTATGTAGGGTATGAAGAGGGTGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTg                                                                            >  2:112659/1‑136 (MQ=255)                               accaccAGGCTATGTAGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTg                                                                            >  2:394523/1‑136 (MQ=255)                               accaccAGGCTATGTAGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTg                                                                            >  2:110769/1‑136 (MQ=255)                                         tATGTAGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGgcc                                                                  >  2:276681/1‑136 (MQ=255)                                             tcggctATGAAGAGGGTGGCGTTCTGACGGAAGCTGTGCGTCGCAGACCATATCAGGTGATCCTGTTCGATGAGATCGAAAAGGCGCATCCGGATGTGTTCAACGTGCTGCTGCAGGTTCTTGATGACGGTCGTCt                                                              >  1:374781/6‑136 (MQ=255)                                              aGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTg                                                             >  1:134095/1‑136 (MQ=255)                                              aGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTg                                                             >  2:281694/1‑136 (MQ=255)                                               ggctATGAAGAGGGTGGCGTTCTGACGGAAGCTGTGCGTCGCAGACCATATCAGGTGATCCTGTTCGATGAGATCGAAAAGGCGCATCCGGATGTGTTCAACGTGCTGCTGCAGGTTCTTGATGACGGTCGTCTGa                                                            <  2:502383/133‑1 (MQ=255)                                                ggTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGAc                                                           <  1:110769/136‑1 (MQ=255)                                                ggTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGGTCACCGGGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGAc                                                           <  1:276681/136‑1 (MQ=255)                                                      aaGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAg                                                     <  2:511257/136‑1 (MQ=255)                                                      aaGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGCTGCAGGTGCTGGAGGACGGCCGCCTGACCGACAg                                                     <  2:335251/136‑1 (MQ=255)                                                              ggTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGgc                                             >  1:474384/1‑136 (MQ=255)                                                              ggTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGgc                                             >  1:426130/1‑136 (MQ=255)                                                                               cGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGc                            >  1:186546/1‑136 (MQ=255)                                                                                    ggcgCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGCAacac                       >  1:412922/1‑136 (MQ=255)                                                                                                  tgggtggtGCTGCTGGACGTGGTTGAAAAAGCCTACCCGTATGTGTTCAACGTGCTTTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGCAACACCGTGATCGtgttga         <  2:412922/134‑1 (MQ=255)                                                                                                  tCGGTTGTGCTGATGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGCAACACCGTGATCGtgatga         <  1:486396/136‑1 (MQ=255)                                                                                                  caggtgatCCTGTTCGATGAGATCGAAAAGGCGCATCCGGATGTGTTCAACGTGCTGCTGCAGGTTCTTGATGACGGTCGTCTGa                                                            <  1:470901/83‑1 (MQ=255)                                                                                                  caggtgatCCTGTTCGATGAGATCGAAAAGGCGCATCCGGATGTGTTCAACGTGCTGCTGCAGGTTCTTGATGACGGTCGTCTGa                                                            >  2:470901/3‑85 (MQ=255)                                                                                                        gtgCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGCAACACCGTGATCGTGATGACCTCCa   >  1:447534/1‑136 (MQ=255)                                                                                                         tgctgcTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGCAACACCGTGATCGTGATGACCTCCaa  >  2:459689/1‑136 (MQ=255)                                                                                                                   |                                                                                                                              GAAGCACTCCGTCGCGCGCCTGATCGGTGCACCACCAGGCTATGTAGGGTATGAAGAGGGCGGTTACCTGACCGAGGCCGTGCGGCGCAAGCCTTACTCGGTGGTGCTGCTGGACGAGGTGGAAAAAGCCCACCCGGATGTGTTCAACGTGCTGTTGCAGGTGCTGGAAGACGGCCGCCTGACCGACAGCCACGGGCGCACCGTGGACTTCCGCAACACCGTGATCGTGATGACCTCCAA  >  NC_002947/732380‑732619

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑