Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,536,377	G→T	8.3%	intergenic (+48/‑29)	PP_3124 → / → PP_3125	short chain fatty acid transporter/Cro/CI family transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,536,377	0	G	T	8.3%	143.4 / 2.1	48	intergenic (+48/‑29)	PP_3124/PP_3125	short chain fatty acid transporter/Cro/CI family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (22/22);  new base T (2/2);  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 = 9.10e-01

TTTCTCGTTCGTGCAATTGCTGGTGCATGTGCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAGGTCGAGCGCGGCCTCAACACGCCC  >  NC_002947/3536230‑3536525                                                                                                                                                    |                                                                                                                                                     tttCTCGTTCGTGCAATTGCTGGTGCATGTGCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCt                                                                                                                                                    >  2:266587/1‑150 (MQ=255)            tGCAATTGCTGGTGCATGTGCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAATGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTg                                                                                                                                         >  1:1084732/1‑150 (MQ=255)            tGCAATTGCTGGTGCATGTGCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTg                                                                                                                                         >  2:288408/1‑150 (MQ=255)             cctaTTGCTGGTGCATGTGCCGTTGGTGCTGGTGTTGTTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCGAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTgg                                                                                                                                        <  2:657427/147‑1 (MQ=255)                      ggTGCATGTGCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTcgc                                                                                                                               <  1:266587/150‑1 (MQ=255)                           aTGTGCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCCGTGCTGCCATGTCACAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTcac                                                                                                                          <  1:688438/150‑1 (MQ=255)                            tgtgCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTcac                                                                                                                          >  1:952612/1‑149 (MQ=255)                            tgtgCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTcac                                                                                                                          <  2:952612/149‑1 (MQ=255)                                 cGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCt                                                                                                                    >  1:993475/1‑150 (MQ=255)                                       tGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGa                                                                                                              >  1:635339/1‑150 (MQ=255)                                       tGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGa                                                                                                              >  1:635337/1‑150 (MQ=255)                                        gCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGAt                                                                                                             <  2:945294/150‑1 (MQ=255)                                          tGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTcgc                                                                                                                               <  2:208833/130‑1 (MQ=255)                                          tGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTcgc                                                                                                                               >  1:208833/1‑130 (MQ=255)                                                        gcgcTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACtgctgc                                                                                                 >  2:114637/1‑146 (MQ=255)                                                        gcgcTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACtgctgc                                                                                                 <  1:114637/146‑1 (MQ=255)                                                                 aCAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTggg                                                                                    <  1:637106/150‑1 (MQ=255)                                                                   aaCGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGa                                                                                  >  1:112884/1‑150 (MQ=255)                                                                     cGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGaaa                                                                                         >  2:1089324/1‑141 (MQ=255)                                                                     cGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGaaa                                                                                         <  1:1089324/141‑1 (MQ=255)                                                                        tGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGAcc                                                                             <  2:653910/150‑1 (MQ=255)                                                                              aCGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGTTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATTTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGaa                                                                       <  2:393887/150‑1 (MQ=255)                                                                                gTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAAt                                                                     >  1:480054/1‑150 (MQ=255)                                                                                gTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAAt                                                                     >  1:3980/1‑150 (MQ=255)                                                                                    cgccAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTg                                                                 <  1:305852/150‑1 (MQ=255)                                                                                     gccAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTgg                                                                <  1:388188/150‑1 (MQ=255)                                                                                      ccAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATcc                                                                                                                >  2:1049487/1‑101 (MQ=255)                                                                                      ccAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATcc                                                                                                                <  1:1049487/101‑1 (MQ=255)                                                                                      ccAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGc                                                               <  1:106913/150‑1 (MQ=255)                                                                                              cagatGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCAGATTGAACCTGCTGCGTAAGAAACTGGGGATGAACCTTGAAATGCTGGCCGAAAAgg                                                       >  1:879614/5‑149 (MQ=255)                                                                                                 ttGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTg                                                    >  2:1120497/1‑150 (MQ=255)                                                                                                    aTTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCa                                                 >  2:834554/1‑150 (MQ=255)                                                                                                        aaGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCACGAc                                             >  1:71609/1‑150 (MQ=255)                                                                                                              ccTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGTCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCaaaa                                        >  1:513252/1‑149 (MQ=255)                                                                                                              ccTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGTCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCaaaa                                        >  1:513326/1‑149 (MQ=255)                                                                                                              ccTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGTCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCaaaa                                        <  2:513252/149‑1 (MQ=255)                                                                                                              ccTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGTCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCaaaa                                        <  2:513326/149‑1 (MQ=255)                                                                                                                  gAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTAc                                   <  2:993475/150‑1 (MQ=255)                                                                                                                     gCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTg                                >  2:480375/1‑150 (MQ=255)                                                                                                                           cGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAg                          <  2:480054/150‑1 (MQ=255)                                                                                                                           cGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAg                          <  2:112884/150‑1 (MQ=255)                                                                                                                            gTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCCGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAga                         >  2:60856/1‑149 (MQ=255)                                                                                                                                 cTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAGGTCGAg                    >  2:365227/1‑150 (MQ=255)                                                                                                                                    tCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAGGTCGAgcgc                 <  1:288408/150‑1 (MQ=255)                                                                                                                                          gcgTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGAcc                                                                             >  2:733552/1‑84 (MQ=255)                                                                                                                                          gcgTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGAcc                                                                             <  1:733552/84‑1 (MQ=255)                                                                                                                                               tCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAGGTCGAGCGCGGCCTCAacac      <  2:635337/150‑1 (MQ=255)                                                                                                                                               tCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAGGTCGAGCGCGGCCTCAacac      <  2:635339/150‑1 (MQ=255)                                                                                                                                                   ggCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTGCCTGTCCAAGGTCGAGCGCGGCCTCAACACGccc  <  2:71609/150‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                     TTTCTCGTTCGTGCAATTGCTGGTGCATGTGCCGTTGGTGCTGGTGTTGCTGTGGGCGCTGGGTACAACGCTGCAGTACGTGCCGCCAGTGATGCCTTGATTCAAGGCCCCTGGAGGCTTGGCGTCAGCTTTCAGACGCGTATCATGGCTGCCTCAGCCTGGGAAACTCGCGTCACATGTCTATCCGATTGAAACTGCTGCGTAAGAAACTGGGGATGACCCTGGAAATGCTGGCCGAAAAGACTGGCATGACCAAAAGCTACCTGTCCAAGGTCGAGCGCGGCCTCAACACGCCC  >  NC_002947/3536230‑3536525

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑