Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,896,445	G→A	10.3%	intergenic (+78/‑130)	PP_4304 → / → sbp‑I	VIC family cation transporter/sulfate ABC transporter substrate‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,896,445	0	G	A	10.3%	105.2 / 2.8	40	intergenic (+78/‑130)	PP_4304/sbp‑I	VIC family cation transporter/sulfate ABC transporter substrate‑binding protein
Reads supporting (aligned to +/- strand):  ref base G (21/14);  new base A (2/2);  total (23/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.95e-01

AGAAGACCCACGAGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACGCAACGTGAAAAAACTC  >  NC_002947/4896300‑4896586                                                                                                                                                       |                                                                                                                                              agaagaCCCACGAGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGttt                                                                                                                                            <  4:266672/149‑1 (MQ=255)  gaagaCCCACGAGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTa                                                                                                                                           <  1:27519/149‑1 (MQ=255)  gaagaCCCACGAGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGACGGCCTCTTCGCGGGGAAATCCGCTCCTACATGCGCCGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTa                                                                                                                                           >  7:251213/1‑149 (MQ=255)        ccACGAGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGG‑‑‑GGACCG‑CGCACGGTCCGCGCCTGTAGGA‑GCGGATTTAc                                                                                                                                          <  8:224421/144‑1 (MQ=14)        ccACGAGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGG‑‑‑GGACCG‑CGCACGGTCCGCGCCTGTAGGA‑GCGGATTTAc                                                                                                                                          >  7:224421/1‑144 (MQ=14)             aGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGG‑‑‑GGACCG‑CGCACGGTCCGCGCCTGTAGGA‑GCGGATTTACCCGCGAagag                                                                                                                                <  2:180019/149‑1 (MQ=14)                             ctgttctCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGa                                                                                                                 <  3:127042/148‑1 (MQ=255)                                 tctcGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGAGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCa                                                                                                             >  5:382631/1‑148 (MQ=255)                                   tcGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGGAGGA‑GCCGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATaa                                                                                                          >  5:173636/1‑149 (MQ=255)                                                      tttCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTAGCCGGTAAATACGCTCCTAAAGGCGCGGAACG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCCGGTTTACCCGCCAAGAGGCCGGCACAAGCAGAACCATAACCAAAGCAAttttttttat                                                                                       >  4:298714/1‑147 (MQ=255)                                                          ccAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTaa                                                                                   >  6:108749/1‑149 (MQ=255)                                                                     tAGCGCCTGCGCCGGCCTATTCGCTGGTAAATCCGATCCTACTGGCGCGGACCG‑TGCGCGTTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATaaa                                                                         <  8:251213/148‑1 (MQ=39)                                                                       gcgcCTGCGCCGGCCTCTTCGCGGTTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTTGTA‑GGGGTTTTACCCGCTAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAacc                                                                       <  1:378486/148‑1 (MQ=255)                                                                               gcCGGCCTCTTCGCGGGTAAATCGGCGCCTACAGGCGCGGACCG‑TGTGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTta                                                              <  6:382631/149‑1 (MQ=255)                                                                                 cGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTtata                                                            >  6:218569/1‑149 (MQ=255)                                                                                      tctTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGc                                                       >  7:124656/1‑149 (MQ=255)                                                                                       ctTCGCGGGTAAACCCGCTCCTACGGG‑‑‑GGACCG‑CGCACGGTCCGCGCCTGTAGGA‑GCGGATTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCt                                                      >  8:226570/1‑149 (MQ=14)                                                                                          cgcgGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTgg                                                    >  7:149664/1‑148 (MQ=255)                                                                                                  aaTCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGc                                            <  5:108749/148‑1 (MQ=255)                                                                                                  aaTCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CACGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGc                                            <  3:298714/148‑1 (MQ=255)                                                                                                   aTCCGCTCCTACAGGCGCGGACCGTTGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGcc                                           >  7:56886/1‑149 (MQ=255)                                                                                                       gCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGt                                                                              <  7:71173/109‑1 (MQ=255)                                                                                                       gCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGt                                                                              >  8:71173/1‑109 (MQ=255)                                                                                                           cTACAGGCGCGGACCG‑TGGGCGGTCC‑‑‑CCCGTAGTA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACAccc                                  <  6:173636/149‑1 (MQ=255)                                                                                                           cTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACAccc                                  >  1:110740/1‑149 (MQ=255)                                                                                                               aGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTg                                                     <  2:328208/126‑1 (MQ=255)                                                                                                                 gcgcGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGAGGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTc                               >  1:29840/1‑147 (MQ=255)                                                                                                                       aCCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAg                      >  1:28181/1‑149 (MQ=255)                                                                                                                         cG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGa                    >  4:4093/1‑149 (MQ=255)                                                                                                                            tGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCCCAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACg                  >  1:87342/1‑149 (MQ=255)                                                                                                                                 ggTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACGCAACg             >  6:341262/1‑149 (MQ=255)                                                                                                                                  gTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCACAACACCATTCAAGAACAAGGACGAAACGt            >  2:375976/1‑149 (MQ=255)                                                                                                                                  gTCC‑‑‑CCCGTAGGA‑GCGGGTTTACACGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGCACGCAACGt            >  4:350987/1‑149 (MQ=255)                                                                                                                                   tCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACGCAACGTg           <  2:29840/149‑1 (MQ=255)                                                                                                                                          ccGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACAccc                                  <  1:100131/122‑1 (MQ=255)                                                                                                                                          ccGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACGCAACGTGaaa        >  8:328912/1‑148 (MQ=255)                                                                                                                                          ccGTAGGA‑GCGGGTTTACACGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACAccc                                  >  2:100131/1‑122 (MQ=255)                                                                                                                                           cGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACGCAACGTGaaaa       >  1:7395/1‑148 (MQ=255)                                                                                                                                               ggA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACGCAACGTGAAAAAActc  <  8:56886/149‑1 (MQ=255)                                                                                                                                                gA‑GCGGGTTTACCCTCTAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTTCCCCAACACCCTTCAAGAACAAGGACGCAACGTGAAAAAActc  <  1:375976/148‑1 (MQ=255)                                                                                                                                                       |                                                                                                                                              AGAAGACCCACGAGCAGGGGGCGGCGTTCTGTTCTCGCTGTGGGAATGGGTTGTTTCCCAAAGCGTGATAGCGCCTGCGCCGGCCTCTTCGCGGGTAAATCCGCTCCTACAGGCGCGGACCG‑TGCGCGGTCC‑‑‑CCCGTAGGA‑GCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAGAAGCATAACCAAAGCATTTTTTGTTCTTTAACCCGTATAAACCCACCCGTTATAGTCGCTGGCAATCTGCCCCAACACCCTTCAAGAACAAGGACGCAACGTGAAAAAACTC  >  NC_002947/4896300‑4896586

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: ‑