Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,097,209	T→G	100%	intergenic (+380/+356)	ycdU → / ← serX	putative inner membrane protein/tRNA‑Ser

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,097,209	0	T	G	90.4%	64.7 / ‑1.5	38	intergenic (+380/+356)	ycdU/serX	putative inner membrane protein/tRNA‑Ser
Reads supporting (aligned to +/- strand):  ref base T (1/3);  new base G (16/18);  total (17/21)
Fisher's exact test for biased strand distribution p-value = 6.13e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01

TCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCAC  >  NC_000913/1097114‑1097257                                                                                                |                                                 tCGACCCCCATTCGACGCTTCCCACCCCCCCCGTGTCTGAAACACACTAAAAAAAAGCCCGTACCTTCGCACGAGCTCTTCTTTAAATATGGCGGTGAgg                                              <  2:515829/100‑1 (MQ=2)  cGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAgg                                              >  2:840516/1‑99 (MQ=25)    aCCCCCGGTCGAGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAgggg                                            <  1:1259320/99‑1 (MQ=255)      ccccGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAggggggg                                         >  2:1774609/1‑100 (MQ=18)      ccccGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAgggggcg                                         <  1:1739464/100‑3 (MQ=16)        ccGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGAt                                       <  1:1231846/100‑1 (MQ=17)          ggTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTg                                     <  1:997252/100‑1 (MQ=17)             cGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACt                                  <  1:791878/100‑1 (MQ=18)              ggggCTTCTCATCCCCCCGGCGTGTGCAATACACGGAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGAc                                   >  2:1966783/1‑98 (MQ=255)               gggCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcg                                <  1:2424194/100‑1 (MQ=17)               gggCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcg                                <  1:579179/100‑1 (MQ=18)               gggCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACacg                                >  2:2314362/1‑100 (MQ=16)                gggggctgaTCCCCCCGGTGTGGGCAATACACGAAAAAAGAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAggggg                                           <  2:2072945/80‑1 (MQ=11)                ggCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgc                               >  1:1772034/1‑100 (MQ=18)                 gCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAGGCCCGTACTGTGGTGCGAACGCTTCGTGAAATATGGCGGGGAGGGGGGGGTTgtcgcggt                              >  2:2317971/1‑93 (MQ=11)                 gCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgct                              >  1:892321/1‑100 (MQ=17)                  cTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgct                              <  1:1851896/99‑1 (MQ=17)                   ttCTCATCCCCCCGGTGTGTGCAATACACGAAAAAGAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgcttc                            <  1:175991/100‑1 (MQ=16)                   ttCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgcttc                            >  1:395146/1‑100 (MQ=18)                    tctcggccccccGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAggggggg                                         <  2:721389/80‑1 (MQ=11)                    tctcGTCCCCCCGTTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgcttcg                           <  2:1378848/100‑1 (MQ=255)                     ctcAGCCCCCCGGTGTGTGAAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgctt                             <  1:1718561/97‑1 (MQ=255)                      tcATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACtcgcttcgct                         >  1:2436042/1‑100 (MQ=18)                         tCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTtcgctcgc                      >  1:396458/1‑100 (MQ=18)                            ccccGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCt                   >  2:111990/1‑100 (MQ=33)                              ccGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGc                 >  2:630716/1‑100 (MQ=18)                              ccGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGc                 <  1:1554078/100‑1 (MQ=17)                                 gtgtgtGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCggg              <  1:437686/100‑1 (MQ=17)                                 gggtgtgCAAAACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCggg              <  1:617478/98‑1 (MQ=17)                                  tgtgtgCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGc             <  1:2006386/100‑1 (MQ=17)                                   gtgtgCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCa            <  2:395142/100‑1 (MQ=32)                                       gCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGccc        >  1:2540483/1‑100 (MQ=18)                                        cAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGccc        <  1:347048/99‑1 (MQ=17)                                         aaTACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATCTGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGc      <  2:205317/100‑1 (MQ=12)                                           tACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTc    >  2:1549222/1‑100 (MQ=17)                                           tACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTc    >  2:903210/1‑100 (MQ=17)                                             cacGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGGTTGACTCGCTTCGCTCGCCCTGCGGGAAggg         >  2:1922287/1‑91 (MQ=11)                                             cacGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCAc  >  1:1106313/1‑100 (MQ=11)                                                                                                |                                                 TCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCAC  >  NC_000913/1097114‑1097257

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑