Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	40,515	0	G	T	47.9%	62.0 / 24.1	48	Q473K (CAA→AAA)	caiT	putative transporter
Reads supporting (aligned to +/- strand):  ref base G (5/20);  new base T (23/0);  total (28/20)
Fisher's exact test for biased strand distribution p-value = 3.28e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CATTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGCGTTAA  >  NC_000913/40368‑40664                                                                                                                                                    |                                                                                                                                                       catTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAAt                                                                                                                                                     <  2:149617/151‑1 (MQ=255)     taaattaaaATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGGATTgg                                                                                                                                                  >  2:3867/1‑150 (MQ=255)          taaaATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGgtt                                                                                                                                               >  1:151241/1‑148 (MQ=255)           aaaaTCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATTGGttt                                                                                                                                               >  2:307414/1‑147 (MQ=255)           aaaaTCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGttt                                                                                                                                               >  1:130389/1‑147 (MQ=255)            aaaTCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGGTTTAAATGGTTTCAg                                                                                                                                            >  2:141752/1‑149 (MQ=255)                  aTCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGGTTTAATCAGTTTCAGgccccc                                                                                                                                      >  1:561560/1‑149 (MQ=255)                           ccTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTTATAGGGTTTAAGCCGGCGAGCGcc                                                                                                                               >  2:326986/1‑147 (MQ=255)                            ctctTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCTGGTTCAGGGCGCCGAGCGcc                                                                                                                               >  2:333299/1‑146 (MQ=255)                              ctTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATTGGGTTTAGGGCGCCCAgcggc                                                                                                                               >  1:70939/1‑142 (MQ=255)                                tGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTGGTCGGTTTCCAGCCCCCGAGCGcc                                                                                                                               >  1:149367/1‑142 (MQ=255)                                tGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGa                                                                                                                         <  1:278537/148‑1 (MQ=255)                                 gATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGTTTTAGGCCCCCGAGCGCCAGCAGaa                                                                                                                        >  1:57251/1‑148 (MQ=255)                                  atcttttGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCCGGCTCAACGCCCCGAGCGCCCGCCGAACaa                                                                                                                     >  1:377540/4‑150 (MQ=255)                                        tGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATTGGGTTTAGGCCGCCGCGCGCCAGCAGAACAAAACCGa                                                                                                               >  2:71510/1‑150 (MQ=255)                                               taattaatCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGGTTCAAGCCGCCGCGCGCCAGCCGAAAAAAAACGaaaaaacc                                                                                                        >  2:114400/1‑146 (MQ=255)                                                aattaatCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGGTTTAAACGGGTTTAGGCCCCCCAGCGCCCGCAGAACAAAAACCATaa                                                                                                            >  1:291287/1‑145 (MQ=255)                                                    aatCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAg                                                                                                  <  1:607763/151‑1 (MQ=255)                                                         ttCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAAtt                                                                                              <  2:511893/150‑1 (MQ=255)                                                          tCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTg                                                                                             <  1:543025/150‑1 (MQ=255)                                                           ccAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGCGCGCCAGCAGAAAAATAACGATAATGCCAAACCGaaat                                                                                              >  1:632848/1‑146 (MQ=255)                                                           ccAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGAc                                                                                           <  1:72248/151‑1 (MQ=255)                                                                tCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGTTTTAGGCCGCCGAGCGCCCGCAGAACAATACCCATAATGCCAACCACAATTTACCCAcc                                                                                      >  2:310653/1‑151 (MQ=255)                                                                tCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGTTTCTGGGCGCCGAGCGCCCGCAGAACAATACAGATAATTTCAAACATAATTTACCAAcc                                                                                      >  1:207980/1‑151 (MQ=255)                                                                   gTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAAcc                                                                                      <  2:151236/148‑1 (MQ=255)                                                                   gTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAAcc                                                                                      <  2:132751/148‑1 (MQ=255)                                                                                aataaAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCag‑a                                                                     <  2:414834/151‑1 (MQ=255)                                                                                 ataaAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTTATCGGGTTTAGGCCCCCGGGCGCCCGCAGAACAATACCGATAATGCCAACCAGAAATGACCCACCCAAACGCACCCACag‑a                                                                     >  2:433332/1‑150 (MQ=255)                                                                                 ataaAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGTTTCAGGCCGCCGAGCGCCCGCAGAAAAAAAACGATAATGCCAACCAGAATTGACCAACCGATACGCACcagc                                                                         >  1:394384/1‑147 (MQ=255)                                                                                  taaAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAAACGGGTTTAGGCCCCCCGGCGCCCGCCGGACAAAAACCATAAATCCCAACAGAAATGACCAACCCAAACGCAcc                                                                            >  2:614080/1‑143 (MQ=255)                                                                                         gagCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGttct                                                            <  1:341573/151‑1 (MQ=255)                                                                                            cGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGGTTTAAGGCGCCCAGCGCCCGCAGAACAATAACCATAAAGGCAACCACAATTGACCAACCAATACGCACCACCCG‑AGGGGGgtctt                                                           >  2:160791/1‑149 (MQ=255)                                                                                               cACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCa                                                      <  2:57251/151‑1 (MQ=255)                                                                                                 ccATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGGTTTAGGCCGCCCGGCGCCAACAGAAAAAAAACCAAAAAGCCAAACAAAAATGAACAAACCAAAAGCACCAACAA‑AGGGGGGTTTTTAcc                                                       >  2:516403/1‑148 (MQ=255)                                                                                                  cATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATTTGGTTCATGGGGCCCAGTGCCAACAGAAAAATAACGATAATGCCAACCAGAATTTTCCCACCGATACGCACCCGCAG‑Aggggggagattgggaga                                                    >  1:374122/1‑138 (MQ=255)                                                                                                  cATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑Aggtggt                                                               <  2:374115/139‑1 (MQ=255)                                                                                                   aTAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTGATTGGTTTCAGGCCGCCCCGCGCCAGCAGAACAATAACCCTAATGCCCACCAGAAATTTCCCACCGATACGCACCAACAG‑AGGGGGGTCTTCACCATccc                                                  >  2:420166/1‑149 (MQ=255)                                                                                                    tAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATcgc                                                  <  2:47334/150‑1 (MQ=255)                                                                                                     aaTGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCGGGTTTAGGCCGCCCGGGGCCCGCAGAAAAAAAACGATAAAGCCAACCCGAAATGACCCAACCCTACGCACCAACAG‑AGGGGGGTCTTCAcc                                                       >  1:583796/1‑144 (MQ=255)                                                                                                     aaTGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGt                                                <  2:571910/151‑1 (MQ=255)                                                                                                        gTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGGTTCAGGCCGCCGGGCGCCAGCAGAAAAAAAACGATAATGCCAAACAGAATTTACCAACCGATACCCCCCAGCAGAAGGGGGTTTTccaccacccgta                                                >  2:130887/1‑143 (MQ=255)                                                                                                         ttGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAATCAGGTTCACGCCCCCCCGCCCCAACAGAAAAAAACCGCAAATGCCAACCAGACATTACCCAACGCAACGCACCAGCAG‑AAGGGGGTCTTCaacctccc                                                  >  2:162002/1‑138 (MQ=255)                                                                                                                agaaCAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCa                                     <  2:559270/151‑1 (MQ=255)                                                                                                                        gggCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACa                             <  2:90627/151‑1 (MQ=255)                                                                                                                         ggCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACAt                            <  1:363895/151‑1 (MQ=255)                                                                                                                            aTCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGc                         <  1:475938/151‑1 (MQ=255)                                                                                                                              cctccGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGGCATCGCCa                       <  1:535038/151‑1 (MQ=255)                                                                                                                                             gCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAgg        <  1:154569/151‑1 (MQ=255)                                                                                                                                                    gAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGCGTTaa  <  2:73662/150‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                       CATTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTGAATCGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGATAATGCCAACCAGAATTGACCAACCGATACGCACCAGCAG‑AGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGCGTTAA  >  NC_000913/40368‑40664

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑