Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	40,515	0	G	T	45.3%	63.5 / 29.9	54	Q473K (CAA→AAA)	caiT	putative transporter
Reads supporting (aligned to +/- strand):  ref base G (9/20);  new base T (24/0);  total (34/20)
Fisher's exact test for biased strand distribution p-value = 5.56e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CATTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGCGT  >  NC_000913/40368‑40661                                                                                                                                                     |                                                                                                                                                     catTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGaa                                                                                                                                                    <  2:781450/150‑1 (MQ=255) catTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAt                                                                                                                                                   <  1:173171/151‑1 (MQ=255)  atTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTgta                                                                                                                                                    >  2:849278/1‑147 (MQ=255)     taaattaaaATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGTAT‑Tgg                                                                                                                                               >  1:375100/1‑150 (MQ=255)        attaaaATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGTAT‑CGGgtt                                                                                                                                            >  1:83306/1‑150 (MQ=255)                      ttCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAgc                                                                                                                               <  2:790623/149‑1 (MQ=255)                              ctTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTTAT‑TGGTTTTAGGGCGCCGGGGGcc                                                                                                                            >  2:570259/1‑144 (MQ=255)                                tGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTCAGGCCGCCGAGGGCCCGCCGaa                                                                                                                     >  1:858418/1‑149 (MQ=255)                                    atTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑TGGTTTCAGGCCGCCGCGCGCCCGCCGAAAAATa                                                                                                                >  1:609774/1‑150 (MQ=255)                                       ttGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTTAGGGCGCCGAGCGCCAGCAGAAAAATaac                                                                                                              >  1:552959/1‑147 (MQ=255)                                       ttGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCg                                                                                                             <  2:529376/150‑1 (MQ=255)                                         gggggTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑a                                                                                                         <  2:578395/151‑1 (MQ=255)                                         gggggTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑a                                                                                                         <  2:638818/151‑1 (MQ=255)                                          ggggTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTGAT‑CGGGTTTAGGGCGCCGCGCGGCCGCAGAACAATAACGGT‑a                                                                                                         >  2:399984/1‑150 (MQ=255)                                             gTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGc                                                                                                     <  2:667456/151‑1 (MQ=255)                                                aattaatCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTTAGGCCGCCGCGCGCCACCAGAACAAAACCGAT‑aa                                                                                                        >  2:763946/1‑145 (MQ=255)                                                 attaatCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTTAGGGCGCCGAGCGCCCGCAGAAAAAAAACGAA‑AATggcca                                                                                                  >  2:728814/1‑146 (MQ=255)                                                  ttaatCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTTAGGCCGCCCAGCGCCAGCAGAACAAAACCGAT‑AATGCCAAcc                                                                                                >  1:268270/1‑151 (MQ=255)                                                   taatCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTTTGGGCCCCGGGCGCCCGCAGAACAAAACCGCT‑AAAGCCAAcc                                                                                                >  1:122648/1‑150 (MQ=255)                                                      tCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTTAGGCCGCCCGGCGCCAGCCGAAAAAAACCGAT‑AAATCCAAACaaa                                                                                             >  2:404204/1‑148 (MQ=255)                                                       cTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGGTTTAGGCCGCCGCGCGCCCGCAGAAAAAAAACGAT‑AATGCCAACCAGaa                                                                                            >  1:145963/1‑150 (MQ=255)                                                         ttCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTTAT‑AGGGTTTAGGCCGCCCCGCGCCCGCCGAAAAAAAACCAT‑aaataccaacaca                                                                                             >  2:643884/1‑136 (MQ=255)                                                         ttCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGTTTCAGGCCGCCGAGCCCCCGCAGAAAAAAACCCAA‑AAAGCCAAACAGaaat                                                                                          >  1:607397/1‑148 (MQ=255)                                                           ccAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGGTTTAGGCCGCCGAGCGCCAGCAGAACAAAAACGAT‑AATGCCCACCAGAAtt                                                                                          >  1:449194/1‑148 (MQ=255)                                                             aGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑AGGGTTCAGGCCGCCCGGCGCCAACCGAAAAAAAACGCA‑AAAGCCAAACAGAAATTAcc                                                                                      >  1:500074/1‑150 (MQ=255)                                                              gTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCaa                                                                                    <  1:310085/151‑1 (MQ=255)                                                               ttCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑TGGGTTTAGGCCGCCGCGCGCCAGCAGAAAAAAAACGAT‑AAAGCCAAACAGAAATTACCaa                                                                                    >  1:912423/1‑150 (MQ=255)                                                                tCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAAc                                                                                   <  2:962249/150‑1 (MQ=255)                                                                  tGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGGTTTTAAAT‑TGGTTT‑ATGCCGCCGCGCGCCCGCAGAAGAAAACCGATAAAGGCCAACCAAAAttaaaaacc                                                                                   >  2:681896/1‑142 (MQ=255)                                                                   gTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGa                                                                                <  1:55122/150‑1 (MQ=255)                                                                    tttCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑AGGTTTTAGGGCGCCCAGCGCCAGCACAACAAAAACCAT‑AATGCCCACCAGAATTTAACAAcc                                                                                  >  2:91044/1‑147 (MQ=255)                                                                      tCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑TGGGTTTAGGCCCCCGGGCGCCCGCAGAAAAAAAACCAT‑AATACCAACCAGAAATGACCAAcccaaa                                                                              >  2:675227/1‑145 (MQ=255)                                                                        gcgTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑TGGGTTTAAGCCGCCGAGCGCCCGCCGAACAAAACCCAT‑AATGCCAACCAGAAATTACCAACCCATa                                                                              >  2:678126/1‑147 (MQ=255)                                                                         cgTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGTATATGGTTTC‑GGCCGCCGGGCGCCCGCCGAAAAAAAACCAT‑AATTCCAACCAAAAATGACCaa                                                                                    >  2:95383/1‑140 (MQ=255)                                                                          gTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGTTTTAGGCCCCCGAGCGCCCGCAGAAAAAAAACGAT‑AATACCAACCAGAAATTACCAACCCATAAGCAcc                                                                        >  1:171156/1‑151 (MQ=255)                                                                          gTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAA‑CGGGTTTAGGGCCCCCGGCGCCCGCAGAACAAAACCGGT‑AAAGCCCAACCGAAATGACCAACCCAGACACAcc                                                                        >  1:24071/1‑151 (MQ=255)                                                                             tttAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑TGGGTTTAGGGCGCCGGGCGCCACCAGAACAAAAACGAT‑AATGCCCACCCGAAATTACCCACCCAAACGCAccc                                                                       >  2:843431/1‑148 (MQ=255)                                                                              ttAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACcagc                                                                     <  2:355852/150‑1 (MQ=255)                                                                               taataaAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACcagca                                                                    <  2:19857/150‑1 (MQ=255)                                                                                aataaAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTTAAGCCGCCGCGCGCCCGCAGAACAAAAACGAT‑AATTCCCACCAGAATTTAACCACCGATACCCACcagc                                                                     >  1:113067/1‑148 (MQ=255)                                                                                    aaGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTTAT‑AGGTTTTAAGCCCCCCGGCGCCCGCAGAAAAAAAACGAT‑AAATCCAACCAGAAATGACCCAACGAAACCCAcc                                                                        >  1:261552/1‑141 (MQ=255)                                                                                    aaGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTCAGGCCGCCGGGCGCCAGCAGAAAAATACCGAT‑AATGCCAACCAAAAATGACCAACCCCCAACCACCCGCAGAgg                                                                >  1:815784/1‑149 (MQ=255)                                                                                                        gTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTAc                                           <  1:730543/150‑1 (MQ=255)                                                                                                         ttGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑TGGGTTTAGGCCGCCGCGCGCCCGCAGAAAAAAAACCAT‑AATGCCAAACAGAAATTACCAACCCAAAAGCACCCGCAAAAGGGGGTCTTTACCATccccta                                            >  1:76090/1‑143 (MQ=255)                                                                                                              gaagaaCAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCgg                                    >  1:933724/1‑151 (MQ=255)                                                                                                                    cAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTCAGGCCGCCGAGCGCCCGCAGAACAAAACCGAT‑AAATCCAACCAGAAATGACCAACCCATACGCACCCCCAGAGGGGGTTTTTCACCCTCGCGTAcctttccgccaagg                              >  2:833511/1‑138 (MQ=255)                                                                                                                     aGCGGGCATCCTCCGGCGATAATGGCGG‑TTTTAAT‑CGGGTTTAGGGCGCCGCGCGCCAGCAGAAAAAAACCGAT‑AAAGGCCAACAGAATTGACCAACCCCTACGCACCCCCAGAGGGGGGTCTTCACCATCGCGGACTTCTCGGCGAgggg                             >  2:77929/1‑151 (MQ=255)                                                                                                                        gggCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACa                          <  2:883556/151‑1 (MQ=255)                                                                                                                                 ccGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAg                   <  2:395117/149‑1 (MQ=255)                                                                                                                                   ggCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGta               <  2:934772/151‑1 (MQ=255)                                                                                                                                     cGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGtata             <  1:336309/151‑1 (MQ=255)                                                                                                                                      gATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATaa            <  1:767721/151‑1 (MQ=255)                                                                                                                                              cGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGc    <  2:39750/151‑1 (MQ=255)                                                                                                                                                g‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGCGt  <  1:233654/151‑1 (MQ=255)                                                                                                                                                g‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGCGt  >  1:808822/1‑151 (MQ=255)                                                                                                                                                     |                                                                                                                                                     CATTTAAATTAAAATCCATCTTTCAACCTCTTGATATTTTGGGGGTTAATTAATCTTTCCAGTTCTGTTTCGCGTCTTTAATAAAGGAGAGCGTCACCATAATGTTGACGAAGAACAGCGGGCATCCTCCGGCGATAATGGCGG‑TTTGAAT‑CGGTTTCAGGCCGCCGAGCGCCAGCAGAACAATACCGAT‑AATGCCAACCAGAATTGACCAACCGATACGCACCAGCAGAGGTGGTTCTTCACCATCGCGTACTTCGCGGCAAGTGGACATCGCCAGGGTATAAGAGCAGGCGT  >  NC_000913/40368‑40661

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑