Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,248,431	0	A	C	47.2%	40.3 / 11.6	37	G34G (GGT→GGG)	lysP	lysine transporter
Reads supporting (aligned to +/- strand):  ref base A (13/6);  new base C (0/17);  total (13/24)
Fisher's exact test for biased strand distribution p-value = 1.28e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAAACGAACCGGAAACCGGCATATATGCAGCCAGTTCACCGAGACTGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCTTAAAAATGAGGCGCGATTGTAGC  >  NC_000913/2248286‑2248574                                                                                                                                                   |                                                                                                                                                cAAACGAACCGGAAACCGGCATATATGCAGCCAGTTCACCGAGACTGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGt                                                                                                                                            <  1:79158/151‑1 (MQ=255)     cGAACCGGAAACCGGCATATATGCAGCCAGTTCACCGAGACTGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCg                                                                                                                                        >  1:78050/1‑151 (MQ=255)           ggAAACCGGCATATATGCAGCCAGTTCACCGAGACTGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTTCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGaa                                                                                                                                  <  1:218947/151‑1 (MQ=255)                  ggCATATATGCAGCCAGTTCACCGAGACTGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCaa                                                                                                                           <  1:108685/151‑1 (MQ=255)                                    tCACCGAGACTGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGt                                                                                                         >  1:127895/1‑151 (MQ=255)                                           gaCTGGTAATCAGGAAGAAACCCATCAGGCCAACCAGCATATACGAGAGAAATCCCCCGCCGGGCCCTGCCTGAGAATTCGTTGCGCCAGGGGAAAAAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGa                                                                                                       <  1:606436/146‑1 (MQ=255)                                              tGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCtt                                                                                               >  1:370058/1‑151 (MQ=255)                                                 ccatgagaaggTACACCATCAGAATAATCAGCCGAAAGGAGAACAATGCCACCCCGGTCCCTCCCGGAGAAATCGTTGGGCGAGGGCTAAAAAAAAG‑CCCGGTGCCGATAAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTaa                                                                                            <  2:15190/141‑1 (MQ=255)                                                   atcaGGAAGAAACCCATCAGGCAAATCAGAATATACGAGAGAAATGCCCCCCCCGGCCCTGCCTGAGAAATCGTTGCGCCAGAGGCAAAAAAAAG‑CCCTGTACCGAGGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTaa                                                                                            <  1:131742/149‑1 (MQ=255)                                                   atcaGAAAGTAACCCATCAGCCCAACCACCATATCCGAGAGCAAGCCCCCCCCCGGCCCTGCCTGAAAAATCGTTGCCCCAGA‑GCAAAAAAAAGCCCCTCTCCCTAGTGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTaa                                                                                            <  1:494475/149‑1 (MQ=255)                                                     caGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTc                                                                                         >  2:361787/1‑150 (MQ=255)                                                      agaaaGAAACCCACCAGCCCAACAACCATACACGAGGCAAACCCCCCGCCGGCCCCTCCCGAAAAAATCTTCGCCCCAGAGGCAAAAAAAAG‑CCCTTCACCGATAAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTa                                                                                             <  2:623009/142‑1 (MQ=255)                                                       ggAAGAAAACCACCAGCCCGATCAGCATAGAGGAGAGCAATCCCCCGCCGGGACCTGCGTGAGAAGTCGTGGCGCGGGGGGAAACAAAAAG‑CCTTGTACCGATAAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCa                                                                                        <  2:326436/149‑1 (MQ=255)                                                       gaaaGTAACCCATCGGGCCAACCAGCATATACGAGAGAAATCCCCCCCCCGGCCCTGCCTGAAAAATCGTTGCGCCAGGGCAAACAAAAAG‑ACCTGTCCCGATGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACg                                                                                      <  1:376134/149‑1 (MQ=255)                                                       gaaaGAAACCCACCGGGCCAATCAACATATACGAGAGAAATCCCCCCCCCGCACCGGCCTGAAAAATCGTGGCGCCAGAGGCAAAAAAAAG‑CCCTGTCCCGATGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCa                                                                                        <  1:156115/147‑1 (MQ=255)                                                        gAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACgg                                                                                     >  1:372453/1‑151 (MQ=255)                                                         aaGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGc                                                                                    >  1:414489/1‑151 (MQ=255)                                                             aacccaccaGGCAAATCAGAATATACGAGAGCAATGCCCCCCCGGGCCCTGCCGAAAAAATCGTTGCGCAAGAGGCAAAAAAAAG‑CCCTGTCCCGAGGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTa                                                                                 <  1:261068/147‑1 (MQ=255)                                                                             cAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCtgtg                                                                >  2:600049/1‑151 (MQ=255)                                                                              agaatacACGAGAGCAAGCCCCCCCCCGGACCTGCCGAAGAAATCGTTGCGCCAGAGGAAAAAAAAAG‑CCCTGGCCCGATGGACCCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTgg                                                               <  2:558589/148‑1 (MQ=255)                                                                                    taCGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGtttt                                                           >  1:340950/1‑149 (MQ=255)                                                                                        agagCAATCCCCCGCCCGGCCCTGCCTGAAAAATCGTTGCGCCAGAGGCAAAAAAAAG‑CCCTGTCCCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTc                                                     <  1:391331/151‑1 (MQ=255)                                                                                          agCAACCCCCCGCCCGGCCCTGCCGGAGAAATCTTTGCGCCAGAGGCAAAAAAAAG‑CCCTGTCCCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCg                                                    <  2:256940/150‑1 (MQ=255)                                                                                            caagcccccGCCCGGACCGCCGTGAGAAGTCGTGGCGCCAGAGGAAACAAAAGG‑CCCTTTACCTTGGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGa                                                  <  2:266061/145‑1 (MQ=255)                                                                                             aaccccccGCCCGGCCCTGCCTGAAAAATCGTGGCGCAAGAGGCAAAAAAAAG‑CCCTGTCCCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGaaa                                                <  1:165008/147‑1 (MQ=255)                                                                                                cccccccccGGACTTGCCGGAGAAATGTTGGCGGGAAAGGGAACAAAACG‑GGCGATGCGAGCGGAACCGCCAATGGCAATCATCTTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCa                                             <  2:18696/150‑1 (MQ=255)                                                                                                 ccccGCCCGGCCCGGCCGGAAAAACCGTTGCGCCGGAGACAACAAAAAG‑CCCTGTCCCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAAcc                                              <  2:88023/149‑1 (MQ=255)                                                                                                           aCCTGCCTGAGAAATCGTTGCGCCAGAGGCCACAAAAAG‑ACCTGTACCGATGGAACCGCCCATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAAt                                    >  2:443785/1‑149 (MQ=255)                                                                                                            cctgctggAAAAATCGTTGCGCCAGAGCAAAAAAAAAG‑CCCTGTCCCGATGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACaaaaa                                     <  1:219645/147‑1 (MQ=255)                                                                                                            cccgccggAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑CCCTGTACCGATGAAACTGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGc                                  <  2:152709/147‑1 (MQ=255)                                                                                                                cctgAAAAATCGTGGCGCCAGAGGCAAAAAAAAG‑CCCTGTCCCGATGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATcc                             <  1:174259/151‑1 (MQ=255)                                                                                                                    agaAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGAGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCt                         >  2:251560/1‑151 (MQ=255)                                                                                                                           gTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCTTAAAAAt                  >  2:99690/1‑151 (MQ=255)                                                                                                                            ttGCGACAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCTTAAAAAt                  >  1:461537/1‑150 (MQ=255)                                                                                                                                gcaagagCCAAAAAAAAT‑ACCTGTACCAATGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCTTAAAAATGAgg              <  2:18401/147‑1 (MQ=255)                                                                                                                                    gagGCAAAAAAAAG‑CCCTGTCCCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCTTAAAAATGAGgc             <  1:448675/147‑1 (MQ=255)                                                                                                                                            aaaaaG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCTTAAAAATGAGGCGCGATTGTAGc  >  1:217939/1‑150 (MQ=255)                                                                                                                                                   |                                                                                                                                                CAAACGAACCGGAAACCGGCATATATGCAGCCAGTTCACCGAGACTGGTCATCAGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAG‑ACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCTTCTGTGGTTTTAGTTTCGGAAACCATACAAAAATGCTATCCATCTTAAAAATGAGGCGCGATTGTAGC  >  NC_000913/2248286‑2248574

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑