Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,096,803	(G)7→8	noncoding (73/88 nt)	serX ←	tRNA‑Ser

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,096,796	1	.	G	96.6%	142.4 / ‑0.2	59	noncoding (80/88 nt)	serX	tRNA‑Ser
Reads supporting (aligned to +/- strand):  ref base . (2/0);  new base G (34/23);  total (36/23)
Fisher's exact test for biased strand distribution p-value = 5.16e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.77e-01

TTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGA‑GGGG‑GGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTC  >  NC_000913/1096717‑1096883                                                                                 |                                                                                         ttCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCg                                                                             <  1:1362891/93‑1 (MQ=0)      aTCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGccc                                                                        >  2:783092/1‑93 (MQ=255)       tCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGcccc                                                                       >  2:2179179/1‑93 (MQ=255)       tCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGcccc                                                                       >  2:3904473/1‑93 (MQ=255)        ccccccGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGccccc                                                                      <  1:3839747/93‑1 (MQ=255)        ccccccGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGccccc                                                                      <  1:2780614/93‑1 (MQ=11)          ccccGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGa                                                                    <  1:2605210/93‑1 (MQ=11)          ccccGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGa                                                                    <  1:2238369/93‑1 (MQ=255)          ccccGGGTTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGa                                                                    <  1:461193/93‑1 (MQ=11)            ccGGTTTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATa                                                                  <  1:4670998/93‑1 (MQ=14)            ccGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATa                                                                  >  2:3510371/1‑93 (MQ=11)            ccGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATa                                                                  >  2:1083043/1‑93 (MQ=11)             cGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATAc                                                                 >  2:63311/1‑93 (MQ=11)              ggTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACg                                                                >  1:2889396/1‑93 (MQ=255)              ggTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACg                                                                >  2:2529119/1‑93 (MQ=255)               gtgtgtGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGt                                                               <  1:4527832/93‑1 (MQ=255)                tgtgtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATACGtt                                                              >  2:4072192/1‑93 (MQ=14)                 gtgtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGCTTCGAGCCCCCGATACGTTg                                                             >  1:2700770/1‑93 (MQ=14)                  tgtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATACGGTGc                                                            >  2:1537258/1‑93 (MQ=14)                   gtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGGTACGTTGcc                                                           >  2:923537/1‑93 (MQ=14)                    tgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTTGAGCCCCCGATACGTTGCCg                                                          >  1:3038838/1‑93 (MQ=14)                    tgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGACCCCGATCCGTTGCCg                                                          >  2:3295163/1‑93 (MQ=14)                      cAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGta                                                        >  2:851119/1‑93 (MQ=255)                       aaTATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGCGCCCCCGATACGTTGCCGtat                                                       >  2:2094669/1‑93 (MQ=14)                       aaTATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGtat                                                       >  1:26516/1‑93 (MQ=255)                       aaTATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGtat                                                       <  1:2627546/93‑1 (MQ=255)                       aaTATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCCATACGTTGCCGtat                                                       >  1:511349/1‑93 (MQ=14)                        atatACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGGCCCCGATACGTTGCCGtata                                                      >  2:4325931/1‑93 (MQ=14)                        atatACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGtata                                                      >  2:2358993/1‑93 (MQ=255)                        atatACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGtata                                                      >  1:164665/1‑93 (MQ=255)                         tataCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATACGTTGCCGTATac                                                     >  2:4345332/1‑93 (MQ=14)                         tataCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGGCCCCGATAAGTTGCCCTATac                                                     >  2:2722773/1‑93 (MQ=14)                         tataCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATac                                                     >  1:3030161/1‑93 (MQ=255)                         tataCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATac                                                     <  1:3638004/93‑1 (MQ=255)                         tataCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGCGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATac                                                     >  1:1515269/1‑93 (MQ=14)                          ataCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTCAGGGGG‑GGGACTCGAGGCCCCGATACGTTTCCGtatgcc                                                    >  2:3143215/1‑90 (MQ=14)                           taCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGGTGCCGTATacac                                                   >  1:1059185/1‑93 (MQ=14)                            aCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATacaca                                                  <  1:3134708/93‑1 (MQ=255)                             agAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATacacac                                                 <  1:2602377/92‑1 (MQ=11)                              gAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACt                                                >  2:1622323/1‑93 (MQ=255)                              gAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACt                                                >  2:993932/1‑93 (MQ=255)                              gAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACt                                                <  1:176851/93‑1 (MQ=255)                              gAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACt                                                <  1:721540/93‑1 (MQ=11)                              aaaaaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACt                                                <  2:4329827/92‑1 (MQ=11)                               aaaaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGTTTCGAGCCCCCGATACGTTGCCGTATACACACtt                                               >  1:3516325/1‑93 (MQ=11)                               aaaaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATacacacgt                                               >  2:1938479/1‑91 (MQ=11)                               aaaaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACtt                                               <  2:4661293/93‑1 (MQ=255)                               aaaaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACtt                                               >  2:2363329/1‑93 (MQ=255)                               aaaaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACtt                                               <  1:4314797/93‑1 (MQ=255)                                aaaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACttt                                              >  2:593372/1‑93 (MQ=255)                                 aaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTc                                             >  1:2378245/1‑93 (MQ=255)                                 aaaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTc                                             >  2:749043/1‑93 (MQ=255)                                  aaaaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGA‑GGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCa                                           >  1:1425296/1‑93 (MQ=255)                                    aaaGCCCGTGCTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAg                                          <  1:2919996/93‑1 (MQ=11)                                    aaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAg                                          <  1:4363631/93‑1 (MQ=255)                                    aaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAg                                          <  1:3919124/93‑1 (MQ=255)                                    aaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGA‑GGGGAGGGATTGGAGGCCCCGATACGTTCACGTATAAACACTTTCCaa                                          >  1:3459519/1‑92 (MQ=11)                                     aaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAgg                                         >  1:983471/1‑93 (MQ=255)                                      aGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGc                                        <  1:4654632/93‑1 (MQ=255)                                        cccGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGt                                      >  2:1650302/1‑93 (MQ=11)                                        cccGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGt                                      <  1:4282952/93‑1 (MQ=255)                                        cccGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGt                                      >  1:397952/1‑93 (MQ=255)                                         ccGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTg                                     >  1:824793/1‑93 (MQ=255)                                           gTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCt                                   >  2:3381902/1‑93 (MQ=11)                                           gTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCt                                   >  2:1567058/1‑93 (MQ=255)                                            tACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGGTTCGAGCCCCCGATACGTTGCCGTATACACACTTTTCAGGCGTGCTc                                  >  2:1286015/1‑93 (MQ=11)                                            tACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTc                                  >  2:1383840/1‑93 (MQ=255)                                                                            ggTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTc  <  1:662640/93‑1 (MQ=255)                                                                            ggTGAGGGGG‑GGGATTCGAGCCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTc  <  2:1367082/93‑1 (MQ=255)                                                                                 |                                                                                         TTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGA‑GGGG‑GGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTC  >  NC_000913/1096717‑1096883

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑