Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,010,957	T→C	16.0%	Y55Y (TAT→TAC)	pobR →	transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,010,957	0	T	C	16.0%	49.5 / 4.1	25	Y55Y (TAT→TAC)	pobR	transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (7/14);  new base C (2/2);  total (9/16)
Fisher's exact test for biased strand distribution p-value = 6.02e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.83e-01

CCGGCGTCCCGTTGTTCAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGACCGTGCATGGCTTTCGCTTCAGCGCCGATATCCAGGGCTATGTCCTGACCTTTGGTACTGCC  >  NC_002947/4010809‑4011104                                                                                                                                                     |                                                                                                                                                    ccGGCGTCCCGTTGTTCAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCtgtat                                                                                                                                                     <  6:70881/149‑1 (MQ=255)    gCGTCCCGTTGTTCAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCtgtatgta                                                                                                                                                  <  3:141823/149‑1 (MQ=255)    gCGTCCCGTTGTTCAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCtgtatgt                                                                                                                                                   >  4:141823/1‑148 (MQ=255)              ggtCAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGc                                                                                                                                         <  3:14099/146‑1 (MQ=255)                 cAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACa                                                                                                                                                >  1:129687/1‑138 (MQ=255)                 cAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACa                                                                                                                                                <  2:129687/138‑1 (MQ=255)                    gCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGccc                                                                                                                                  <  1:316310/149‑1 (MQ=255)                    gCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCAGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGcc                                                                                                                                   >  1:264459/1‑148 (MQ=255)                          tGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTgg                                                                                                                            <  3:145587/149‑1 (MQ=255)                          tGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTgg                                                                                                                            <  5:256536/149‑1 (MQ=255)                            gCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGgag                                                                                                                          <  6:5621/149‑1 (MQ=255)                                      ggcggggCCCGTCACCGACATTGTGTACTGCGAGTCGATCCCGGCATGAAGCAGCCTGCTTCTCTGGGAGATTAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAgggg                                                                                                                 <  8:208977/143‑1 (MQ=255)                                             cccGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAg                                                                                                         <  8:128707/149‑1 (MQ=255)                                              ccGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTACATACAGcagc                                                                                                                                           <  5:77311/114‑4 (MQ=255)                                              ccGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTACATACAGcagc                                                                                                                                           <  5:81888/114‑4 (MQ=255)                                              ccGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTACATACAGcagc                                                                                                                                           >  6:77311/1‑111 (MQ=255)                                              ccGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTACATACAGcagc                                                                                                                                           >  6:81888/1‑111 (MQ=255)                                                      gACCTGCTGCCCTGCGAGTCGATCCCGGCACGCACCCGCCTGCATCACTGGGAGATCAAGCCGCACCCGCATGCCGAGCTGTTCCCGCTGCTGTATGTACCGCGTGGCCAGGCCCAGGTGGAGATCGAGGCGGAGCGCAGAGCCAtagc                                                                                                >  7:139213/1‑146 (MQ=255)                                                           gctgcACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGACGAGCTCTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCAACGCCGAAg                                                                                           >  7:106553/1‑149 (MQ=255)                                                                  tGCGAGTCGATCCCGTCACGCTGCCGCCTGCATCAGTGGGAGATCAAGCCGCACCAGCATGCGGAGCTGTTCGAGGTGCTGTTTGTTCAGCGTGGCCAGGGGCTGGTGGAGATCGAGGGGGTGCGCAGTGCGATCGGCGAAgcggcg                                                                                      <  8:139213/147‑1 (MQ=255)                                                                     gtgtggATCACGGCACGCAGCCGCCTGCATCACTGGGAGATCATGCCGCACCAGTATGCCGTGCTGTTCTAGCTGCTGTATGTACAGGGTGGACAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCa                                                                                 <  8:106553/144‑1 (MQ=255)                                                                           aTCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGt                                                                           >  1:73473/1‑149 (MQ=255)                                                                                   aCGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGa                                                                   <  2:264459/149‑1 (MQ=255)                                                                                       aGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGAc                                                               >  3:83184/1‑149 (MQ=255)                                                                                         ccgccTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGACCg                                                             <  2:73473/149‑1 (MQ=255)                                                                                          cgccTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGACCGt                                                            <  4:83184/149‑1 (MQ=255)                                                                                                                          gCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGACCGTGCATGGCTTTCGCTTCAGCGCCGATATCCAgg                            >  3:236753/1‑149 (MQ=255)                                                                                                                                             ctgctgTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGACCGTGCATGGCTTTCGCTTCAGCGCCGATATCCAGGGCTATGTCCTGACCTTTg          <  4:236753/148‑1 (MQ=255)                                                                                                                                                     tgtaCAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGACCGTGCATGGCTTTCGCTTCAGCGCCGATATCCAGGGCTATGTCCTGACCTTTGGTACTGcc  >  5:83284/1‑148 (MQ=255)                                                                                                                                                     |                                                                                                                                                    CCGGCGTCCCGTTGTTCAAGCTGTATGGCGAGAATCAGGCCTGGCCCGGCACCGACCTGCTGCACTGCGAGTCGATCCCGGCACGCAGCCGCCTGCATCACTGGGAGATCAAGCCGCACCAGCATGCCGAGCTGTTCCAGCTGCTGTATGTACAGCGTGGCCAGGCCCAGGTGGAGATCGAGGGGGTGCGCAGTGCCATCGGCGAAGCGGCGATCCAGGTCGTGCCACCGATGACCGTGCATGGCTTTCGCTTCAGCGCCGATATCCAGGGCTATGTCCTGACCTTTGGTACTGCC  >  NC_002947/4010809‑4011104

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑