Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	272,009	A→T	13.5%	intergenic (+14/+15)	PP_0218 → / ← metP	sensory box protein/L,D‑methionine D‑methionine ABC transporter permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	272,009	0	A	T	13.5%	88.3 / 6.6	37	intergenic (+14/+15)	PP_0218/metP	sensory box protein/L,D‑methionine D‑methionine ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base A (16/16);  new base T (3/2);  total (19/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01

TGGGGATGCAGGTGCATGCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATACCGATAGGC  >  NC_002947/271862‑272152                                                                                                                                                    |                                                                                                                                                tGGGGATGCAGGTGCATGCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAag                                                                                                                                                <  5:232432/149‑1 (MQ=255) tGGGGATGCAGGTGCATGCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAag                                                                                                                                                >  7:210403/1‑149 (MQ=255)     gATGCAGGTGCATGCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAagcagc                                                                                                                                            <  7:220569/149‑1 (MQ=255)         cAGGTGCATGCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCTTTGCAGcccgg                                                                                                                                        <  7:129078/149‑3 (MQ=255)          aGGTGCATGCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCa                                                                                                                                       <  4:24171/149‑1 (MQ=255)                  gCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGATGGGATTTAGACCGGGCTGCAAAGCAGCCCTCAGATTTCa                                                                                                                                >  3:200559/1‑148 (MQ=255)                    cGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACg                                                                                                                             >  4:174249/1‑149 (MQ=255)                    cGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACg                                                                                                                             >  6:275637/1‑149 (MQ=255)                      aGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCt                                                                                                                           <  5:275637/149‑1 (MQ=255)                          cATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGtt                                                                                                                       <  3:174249/149‑1 (MQ=255)                               aGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGCAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAAc                                                                                                                  <  2:156461/149‑1 (MQ=255)                                              ccAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGcc                                                                                                                                           >  2:268915/1‑109 (MQ=255)                                                        gctgcAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAg                                                                                         >  6:202374/1‑149 (MQ=255)                                                         ctgcAGGTGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCtt                                                                                                              <  6:184427/127‑1 (MQ=255)                                                         ctgcAGGTGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCtt                                                                                                              >  5:184427/1‑127 (MQ=255)                                                            cAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCt                                                                                       <  2:250099/147‑1 (MQ=255)                                                            cAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTgg                                                                                     <  3:189114/149‑1 (MQ=255)                                                              ggaggaGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGAt                                                                                   >  2:611/1‑149 (MQ=255)                                                                              gggCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGc                                                                    <  1:611/148‑1 (MQ=255)                                                                              gggCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCt                                                                   <  8:210403/149‑1 (MQ=255)                                                                                   ggggTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCTGCCCAGCTGGATCAACGCCACTAACGCTACCAg                                                              <  1:35847/149‑1 (MQ=255)                                                                                   ggggTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGc                                                                             <  6:230947/134‑1 (MQ=255)                                                                                   ggggTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGc                                                                             >  5:230947/1‑134 (MQ=255)                                                                                          tGGTTCGGGCGGCCAGTCCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTCCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCAACCAGCATGGc                                                        >  2:17144/1‑148 (MQ=255)                                                                                                   cggcCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGt                                               >  1:71992/1‑148 (MQ=255)                                                                                                       cAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTc                                              <  5:129572/145‑1 (MQ=255)                                                                                                       cAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTc                                              >  6:129572/1‑145 (MQ=255)                                                                                                                     gATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAAc                                                                      >  1:174689/1‑107 (MQ=255)                                                                                                                     gATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAAc                                                                      <  2:174689/107‑1 (MQ=255)                                                                                                                     gATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCACCATGGCGATCACGGTCAGCATGATCTGGCTGTc                             >  1:6981/1‑148 (MQ=255)                                                                                                                          tCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCa                                             <  2:139164/127‑1 (MQ=255)                                                                                                                          tCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCa                                             >  1:139164/1‑127 (MQ=255)                                                                                                                                     atctgagggCTGCTTTGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCa             >  4:83911/7‑148 (MQ=255)                                                                                                                                      agaCCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATa           >  3:70141/1‑149 (MQ=255)                                                                                                                                       gaCCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAAGCCTTCGCCAGGCGGTCCCCGCCGAGCTGGATCAACGCCACTAACGCTTCCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATAc          <  1:17144/149‑1 (MQ=255)                                                                                                                                       gaCCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATAc          <  5:202374/149‑1 (MQ=255)                                                                                                                                         gagggCTGCTTTGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATAcc         >  6:107436/3‑148 (MQ=255)                                                                                                                                          agggCTGCTTTGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATACCGa       >  6:189828/2‑149 (MQ=255)                                                                                                                                          agggCTGCTTTGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATACCGa       <  5:189828/148‑1 (MQ=255)                                                                                                                                               tGCAAAGCAGCCCTCAGATTTCAAAGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTATCCATACCGATAGGc  >  4:165903/1‑149 (MQ=255)                                                                                                                                                  aaaGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCAc                                                                          <  6:58986/74‑1 (MQ=255)                                                                                                                                                  aaaGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCAc                                                                          >  5:58986/1‑74 (MQ=255)                                                                                                                                                    agcagcCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAAGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCa                                             <  3:101822/101‑1 (MQ=255)                                                                                                                                                    agcagcCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAAGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCa                                             >  4:101822/1‑101 (MQ=255)                                                                                                                                                    |                                                                                                                                                TGGGGATGCAGGTGCATGCCGAGGGCATCGAGCAGGCGGAACAGGCCAGCTTCCTGCTGCAGGAGGAGTGCCAGTTGGGGCAGGGGTACTGGTTCGGGCGGCCAGTGCCGGCTGAGGATCTTCGCTGGGATTGAGACCGGGCTGCAAAGCAGCCCTCAGATTTCAACGCTTGTTCAAACCCTTCGCCAGGCGGTCCCCGCCCAGCTGGATCAACGCCACTAACGCTACCAGCATGGCGATCACGGTCAGCATGATCTGGCTGTCGAAACGCTGGTAGCCATACCGATAGGC  >  NC_002947/271862‑272152

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: ‑