Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,757,042	T→A	10.4%	I25F (ATC→TTC)	PP_3320 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,757,042	0	T	A	10.4%	127.6 / 6.3	48	I25F (ATC→TTC)	PP_3320	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (21/22);  new base A (3/2);  total (24/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.89e-01

GTTGGATGCCAGCACGATATGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAACCTGCGATAGATGTTATGT  >  NC_002947/3756894‑3757187                                                                                                                                                     |                                                                                                                                                  gTTGGATGCCAGCACGATATGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGAt                                                                                                                                                   <  2:266159/149‑1 (MQ=255)    ggATGCCAGCACGATATGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGt                                                                                                                                                 <  4:160147/148‑1 (MQ=255)     gATGCCAGCACGATATGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCa                                                                                                                                               >  8:244214/1‑149 (MQ=255)       tGCCAGCACGATATGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCAtg                                                                                                                                             <  7:244214/149‑1 (MQ=255)           aGCACGATATGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCAtgctgc                                                                                                                                         >  4:265140/1‑149 (MQ=255)                 atatGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCAGCATGACATCGGCGAAGTCCTGATGCTggcct                                                                                                                                   <  5:88884/149‑4 (MQ=38)                      cTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGc                                                                                                                              >  1:218161/1‑149 (MQ=255)                         aCATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTAGCCGATGTCATGCTGCTGGGTGATGGCggg                                                                                                                           >  8:201622/1‑149 (MQ=255)                           aTTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGAGGGGa                                                                                                                         >  3:164822/1‑149 (MQ=255)                                 ctctTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGcc                                                                                                                   >  5:294947/1‑149 (MQ=255)                                    ttctCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGccc                                                                                                                  >  5:315040/1‑147 (MQ=255)                                          acaTCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGt                                                                                                          >  4:286828/1‑149 (MQ=255)                                          acaTCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGt                                                                                                          <  4:154605/149‑1 (MQ=255)                                               ccGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAgggg                                                                                                            >  6:74961/1‑142 (MQ=255)                                               ccGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAgggg                                                                                                            <  5:74961/142‑1 (MQ=255)                                               ccGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAg                                                                                                     >  2:251172/1‑149 (MQ=255)                                                cGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAgg                                                                                                    <  3:265140/149‑1 (MQ=255)                                                      tCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTAtgt                                                                                              >  2:195703/1‑149 (MQ=255)                                                        aTAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTAtgtg                                                                                             <  1:251172/148‑1 (MQ=255)                                                        aTAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTgg                                                                                            <  1:54293/149‑1 (MQ=255)                                                              tAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGc                                                                                      <  1:195703/149‑1 (MQ=255)                                                                  aaGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACAt                                                                                  >  8:50891/1‑149 (MQ=255)                                                                      gcCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGt                                                                              <  4:164822/149‑1 (MQ=255)                                                                        ccAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGc                                                                                      <  4:245771/139‑1 (MQ=255)                                                                        ccAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGc                                                                                      >  3:245771/1‑139 (MQ=255)                                                                                       aCCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTc                                                             >  5:283574/1‑149 (MQ=255)                                                                                       aCCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTc                                                             >  8:197372/1‑149 (MQ=255)                                                                                        ccAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTcc                                                            >  6:179508/1‑149 (MQ=255)                                                                                         cAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTccc                                                           <  6:294947/149‑1 (MQ=255)                                                                                             aaTGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCt                                                       <  2:61352/149‑1 (MQ=255)                                                                                                 tACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGc                                                   <  7:50891/149‑1 (MQ=255)                                                                                                      aaGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCt                                              >  2:6335/1‑149 (MQ=255)                                                                                                        gcagcGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTc                                             >  7:35328/1‑148 (MQ=255)                                                                                                           gcgcCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAgg                                         <  8:35328/149‑1 (MQ=255)                                                                                                           gcgcCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAgg                                         <  6:315040/149‑1 (MQ=255)                                                                                                                  ttCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAg                                    <  7:197372/147‑1 (MQ=255)                                                                                                                            cAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTg                        <  3:286828/149‑1 (MQ=255)                                                                                                                             aGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGc                       <  5:179508/149‑1 (MQ=255)                                                                                                                               gCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATg                             <  2:165040/141‑1 (MQ=255)                                                                                                                               gCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATg                             >  1:165040/1‑141 (MQ=255)                                                                                                                                ccATCATCAGGACTTCGCCGATGTCATGCTTCTGGGTGATGGCGGGGATCATCCCCAGGGGGTTCCAGTGTATGTTGCGAAGCACATCGGTCAATGCGAATCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAAc                    <  7:201622/149‑1 (MQ=255)                                                                                                                                ccAGCAGCATGACATCGGCGAAGTCCTGATGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATg                             <  3:170680/140‑1 (MQ=38)                                                                                                                                ccAGCAGCATGACATCGGCGAAGTCCTGATGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATg                             >  4:170680/1‑140 (MQ=38)                                                                                                                                ccAGCAGCATGACATCGGCGAAGTCCTGATGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAAc                    >  7:63811/1‑149 (MQ=39)                                                                                                                                ccAGCAGCATGACATCGGCGAAGTCCTGATGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAAc                    >  7:94899/1‑149 (MQ=39)                                                                                                                                    cATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAACCTGc                <  6:283574/149‑1 (MQ=255)                                                                                                                                        aGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAACCTGCGATa            >  6:222992/1‑149 (MQ=255)                                                                                                                                           aCTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAACCTGCGATAGat         <  1:6335/149‑1 (MQ=255)                                                                                                                                                   gATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAACCTGCGATAGatgttatgt  >  7:143562/1‑148 (MQ=255)                                                                                                                                                     |                                                                                                                                                  GTTGGATGCCAGCACGATATGCTGACATTTCCCTCTTCTCCACATCCCGTTTGTCATAACGTAACAAGCGCCCAGAGTTGCTGAGCACCAGCAATGTACTGAAGCAGCGCCTTTTCGTTCATCCAGGCCAGCATCAGGACTTCGCCGATGTCATGCTGCTGGGTGATGGCGGGGATCAGCCCCAGGGGGTTCCAGGGTATGTGGCGAAGCACATCGGTCAAGGCGAAGCGGCTTCCCGCCTGTGCCTGCTCAAGGGTAAGGAACATGATTTGCAACCTGCGATAGATGTTATGT  >  NC_002947/3756894‑3757187

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑