Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	3,665,707	A→C	20.0%	V35G (GTT→GGT)	gadX ←	acid resistance regulon transcriptional activator; autoactivator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,665,707	0	A	C	20.0%	152.7 / 7.3	69	V35G (GTT→GGT)	gadX	acid resistance regulon transcriptional activator; autoactivator
Reads supporting (aligned to +/- strand):  ref base A (44/10);  new base C (3/12);  total (47/22)
Fisher's exact test for biased strand distribution p-value = 1.95e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01

TACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCACGCCGCCCTCTTAAGTCAAATTGATTGATAAATAAATTTAAACGAAGCGGGAGAACAGGATGATAAT  >  NC_000913/3665471‑3665924                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                             tACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAAcc                                                                                                                                                                                                                            >  1:134976/1‑239 (MQ=255)     tAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑Agg                                                                                                                                                                                                                        >  1:926960/1‑238 (MQ=255)        cATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGCATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCa                                                                                                                                                                                                                     >  1:834577/1‑238 (MQ=255)        cATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGCGATGAACGAGGAATGAAGAAACTTTTTT‑ATGT‑GAATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGGGCAAT‑AATGACA‑GCGAGTCCCTTCAA‑ACGTATATAAATTTTT‑C‑AAAAC‑CA‑TTCATAACTCGATTTTGCCTTGCATCCCCAAAAACA‑Agtaac                                                                                                                                                                                                                     >  2:722523/1‑234 (MQ=255)             cTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTCATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCTTCGGGAGAAAT‑ACTGAAA‑GCGTGTCCCTTGCC‑ACGAATACAAAATTTT‑C‑ACCAC‑AC‑TTATCTCATCGAATTTGGCTTGCATCCGCAAAAACA‑AGGACACccccc                                                                                                                                                                                                               >  2:51181/1‑238 (MQ=255)                     cGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAACCC‑AGGCCACCGCCATTAAAATa                                                                                                                                                                                                       >  1:1252337/1‑239 (MQ=255)                             cTTATTTGGCAATTGTTGCCAAACTTCCGAAAAAAAGGG‑AATATCTCTCAAAAAGTAATGAAGGAGAAATGAAG‑AACTTTTTT‑TTGTGGAATGAAGTTTTAAT‑CCCTCCTCC‑TTGGGAATGGGGAAAAAT‑AATGAAA‑GCTTGTCCCTTGAC‑AAAAATACAAAATTTA‑C‑ACCAC‑AC‑TTATCTACTAGATTTTGGCTTGCACCCGAAAAACCC‑AGGTCACCGCCATTAAAATAGCGATAtt                                                                                                                                                                                               <  1:357177/239‑1 (MQ=255)                               tATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAGGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGAGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑CGGCCAACGCCATTAAAATAGCGaaaaaca                                                                                                                                                                                             >  2:498476/1‑233 (MQ=255)                                    tGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTCCTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGAATCCGCACAAACC‑AGGTCACCGCCATTAAAATAGCGATCtttcccttt                                                                                                                                                                                        >  1:182347/1‑232 (MQ=255)                                    tGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGATTACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCGGCAAAAACC‑AGGTCACCCCAATTAAAAAAGGGAAAttaaacctt                                                                                                                                                                                        >  2:543555/1‑232 (MQ=255)                                    tGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACACAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAACAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCAtt                                                                                                                                                                                       >  1:1018220/1‑239 (MQ=255)                                      cGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTa                                                                                                                                                                                      >  1:733632/1‑238 (MQ=255)                                      cGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGAATTT‑CACATTTaa                                                                                                                                                                                     >  1:464688/1‑239 (MQ=255)                                            ttGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAAc                                                                                                                                                                                    >  1:365936/1‑234 (MQ=255)                                             tGCGCACTTTCCTGAAAAACGGT‑AATTTCTCTACAAAAGTGATGAACGAGTAATGAATAATCTTTTTT‑ATGG‑TAATGAAGATTTAAT‑CCCTCCTCC‑TTGAGCATCGGGAAAAAT‑AATGAAA‑GCTTTTCCCTTGAA‑AAAAATAAAAAATTTT‑C‑AACAC‑TT‑TTATCTACTCAATTTTGGTTTGCACCCGAAAAACCC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGt                                                                                                                                                                              <  1:247198/239‑1 (MQ=255)                                              gcgcAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGCCACCGCCATTAAAATAGCGAAATT‑AACCATAAACCAAggga                                                                                                                                                                             >  2:1010255/1‑237 (MQ=255)                                              gcgcAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAAAGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAAAAGCACTATT‑AACCATTAACCATgggg                                                                                                                                                                             >  1:641902/1‑237 (MQ=255)                                               cgcaattgtatGAAAAACGGG‑AATTTTCTTACTAAGTTTATGAACGAGTAATAAAGAAACTTTTTA‑ATGG‑CCAAAAAATTTTAAG‑CCCTCCACC‑TGGAGCAGCGGGAAAAAT‑AATGAAG‑GGGTGCCCCCAAAC‑ACAAATAAAAAATTTA‑A‑AACAC‑AT‑TTATCTACCCAATTTTGGCTTGAATCCGAAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTga                                                                                                                                                                            <  1:943548/229‑1 (MQ=255)                                                gcAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGCA‑CCGAATACAAAATTTT‑C‑AACAC‑AA‑TTCACTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTAACCCCCATTAAAATAGCGATATT‑CACCATTAACCAGGGGgaa                                                                                                                                                                           >  2:1254492/1‑238 (MQ=255)                                                gcAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTgag                                                                                                                                                                           >  1:987784/1‑239 (MQ=255)                                                 acatttctaaaaaaaGAGA‑TATATCTCTCATAAAGGAATG‑ACGAGAAAAGAAAAAACTTTTTT‑ATGT‑GGAATAAAATTTTAT‑GCCCCCCCCTTTGAGCATGGGAAAAAAA‑AAGAAAA‑GCGTGTCCCTTGCC‑A‑GAAAAAAAAATTTT‑C‑AACCC‑CCTTTATCTACCCAATTTGGGCTTGCATCCGAAAAACCC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTgaga                                                                                                                                                                          <  1:543555/229‑1 (MQ=255)                                                  catttgcaaaaaaaaAGA‑AATTCCTCTAATAAGGGGATGAACGAATAAAGAAAAATTTTTTTT‑TGGT‑GAAAGAAATTTTAAT‑GCCCCCCCC‑TTGAGCAGGGGGAAAAAA‑AAGAAAA‑GCGTTCCCCTTAAA‑ACAAAAAAAAAATTTT‑A‑AACCC‑CC‑TTTTCTACTCTATTTTGGCTTGCACCCAAAAAAACC‑AGGTCCCCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGaa                                                                                                                                                                         <  1:66081/230‑1 (MQ=255)                                                  aatttccaaaaaaaCAAG‑AATACCTCTACTCAGGGGAAGAAAGAATAAGAAAAAAATTTTTTT‑ATGT‑AAAATAAGATTTAAT‑CCCCCCTCC‑TTGACCATGGGAAAAAAT‑AATAAAG‑GCGTGTCCCTTGAC‑ACGAATAAAAATTTTA‑C‑ACCCC‑AC‑TTATCTACTCGATTTTGGTTTGCACCCACAAAACCC‑GGTTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGaa                                                                                                                                                                         <  1:358150/230‑1 (MQ=255)                                                   aatttcaaaaaaaaAGGAAATTTCCCTACGACATGGATAAACGAG‑AAAGAAAAAATTTTTTTGAGGT‑GAATGAAGATTAAGT‑CCCTCCCCC‑TGAAGCATCGGAAAAAAT‑AAGAAAA‑GCGTGCCCCTTGAC‑ACAAATACAAAATTTT‑C‑AACAC‑TC‑TTATCTACTCGAATTTGCCGTGCACCCGAAAAACCC‑AGATCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGaa                                                                                                                                                                         <  1:1255281/231‑1 (MQ=255)                                                    tttccaaaaaaaCAGG‑AATATCTCTACTGAAGTAAGAAACGAGTAATGAAAAAATTTTTTT‑ATGG‑GAAGAAAGTTTTAAT‑GCCTCCTCC‑TTGGGCAGCGGGAGAAAA‑AATAAAG‑GGGTGTCCCTTGAC‑CCAAATA‑AAAATTTT‑CAAACCC‑TC‑TTATCTACCCAAATTTGGCTTGCACCCGAAAAAACC‑AGGCCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAata                                                                                                                                                                       <  1:1136680/232‑1 (MQ=255)                                                        cTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATAtt                                                                                                                                                                   >  1:44077/1‑239 (MQ=255)                                                             aaaCAGG‑AATCTCTCTACTACAGTTAAGAAAGAAAAATAAAAAAATTTTTTT‑AGGT‑GCATGAAGATTAAAT‑CCCCCCCCC‑TTGAACATGGGGAAAAAT‑AATGAAA‑GCGTTCCCTTTGAC‑ACAAATAAAAAATTTC‑C‑AACAC‑AC‑TTATCTACTCAATTTTGGCTTGCACCCGCAAAACCC‑GGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGt                                                                                                                                                              <  1:1010255/239‑1 (MQ=255)                                                                 aGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCtt                                                                                                                                                           >  1:12461/1‑238 (MQ=255)                                                                   g‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCa                                                                                                                                                        >  1:236023/1‑239 (MQ=255)                                                                      atatCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑AACCATTAACCATGTTGAGAATATATTTATGCCTTGCAt                                                                                                                                                       >  1:170549/1‑238 (MQ=255)                                                                      atatCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATAAAAAATTTT‑A‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGAATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTACACATGGTGAAAAAACATTTATGTCttcaaa                                                                                                                                                       >  2:1104902/1‑234 (MQ=255)                                                                           tctACTACAGGGATGAACGAGTAATAAAGAATCTTTTTA‑ATGT‑GAAAGAAATTTTAAC‑CCCTCCCCC‑TTGAGCATCGGAAAAAAT‑AATAAAA‑GCGTTCCCCTTGAC‑ACAAATACAAATTTTC‑C‑AACAC‑AT‑TTATCTACTCAATTTGGGCTTGCACCCAAAAAAACC‑AGGTCCCCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGaa                                                                                                                                                                         <  1:665917/215‑1 (MQ=255)                                                                              actacAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCCTTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAAAATATTTATGTCTTGCAAACGAAAtaa                                                                                                                                              >  2:699988/1‑237 (MQ=255)                                                                                  cAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCATCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGTCTTGCATCCGCAAAAACC‑AGGTCCCCGCCATTACAATCGCGATATT‑CACCATTAACCATGGTGAGAATATATATATGTCTGGCAAAGGCAAATAGACa                                                                                                                                          >  2:650116/1‑239 (MQ=255)                                                                                       atgaACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCTCCATTAAAATAGCGCTATT‑CACCATGAACAATTGTGAGAATAAATTTATGTCTTGCAATCGCAATTAGTCAATTc                                                                                                                                      >  1:706516/1‑238 (MQ=255)                                                                                       atgaACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATg                                                                                                                                                               >  1:410580/1‑213 (MQ=255)                                                                                       atgaACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGAcctgtct                                                                                                                                     >  1:859175/1‑233 (MQ=255)                                                                                       atgaACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTc                                                                                                                                      >  1:608394/1‑238 (MQ=255)                                                                                       atgaACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTc                                                                                                                                      >  1:1285586/1‑238 (MQ=255)                                                                                       atgaACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTc                                                                                                                                      >  1:1110994/1‑238 (MQ=255)                                                                                       atgaACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAACATTATT‑CACCATTAACCATGGGGAGAAAATATTTATATATTGAATACGCAATTAAAAAATTcc                                                                                                                                     >  2:1226981/1‑239 (MQ=255)                                                                                       atgaACGAGAAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACAAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCAAATTTGGCTTGCATCCTCAAAAACC‑AGGTCACCGCCATTAAAAAAGCGATATT‑CACCATTAACCATGCTGGTAATATATTTATGTCTTTCATACGAAATTAGACAATTc                                                                                                                                      >  1:754674/1‑238 (MQ=255)                                                                                          aaCGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAAAAGCGCTATT‑CACCATTAACCATGGTGAGAATCTATTTATATCTTTCATACGCAATTAAACAATTCCCaa                                                                                                                                  >  2:1280265/1‑238 (MQ=255)                                                                                            cGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAACCC‑AGGTCACGGCCCTTAAAATAGCGCTATT‑CCCCATTAACACTGGTGAGAAAATATTCATTTCTTGCTAAAGAAATTAGACAATTCCAATga                                                                                                                                >  2:913389/1‑238 (MQ=255)                                                                                               gTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGt                                                                                                                             >  1:1149030/1‑239 (MQ=255)                                                                                                   taaaaattttttttt‑ATTT‑ACATGATTATTTACC‑CCCCCCCTC‑TTCAGCATGGGGAAAAAT‑AAT‑AAG‑ATGTTCTCCATGACTACAAAAAAAAATTTTA‑C‑AACAC‑AC‑TTATATACAGTATTTTTGTTTCCATCAAAAAAACCC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGAtt                                                                                                                         <  2:1285586/230‑1 (MQ=255)                                                                                                          tttttttt‑ATTG‑GCATGAATTTTTAAC‑CCCTCCTCT‑TGGAGCATGGGAAAAAAT‑AAGGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTCT‑C‑AACAC‑TT‑TTATCTCCTCGAATTTGGCTTGCATCCACAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGt                                                                                                                  <  1:699988/237‑1 (MQ=255)                                                                                                          tttttttt‑ATGT‑GATTGAAGTTTCACT‑CCCTCCCCC‑TTGAACATAGAGAAAAAA‑AAGAAAC‑GTTTGTCCTGTGAT‑CAAAATAAAAAAATTA‑A‑AACAC‑AC‑TTATCATGTAGATTTTGTATGTGACCCGCAAAACCC‑AGTGCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGt                                                                                                                  <  2:134976/237‑1 (MQ=255)                                                                                                          aCTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGCATATATTTATGTCTTGAATAGGCAATTATACAATTCCAATGTACGAATTCCATAGt                                                                                                                  >  1:1014665/1‑239 (MQ=255)                                                                                                                 tttattgacATAAATATTTAAT‑GTCCCCTCC‑TTGAGCAGCGGGAAAAAT‑AAGGAAC‑GCTTCCCCTTTGAC‑ACAAATAAAAATTTTA‑C‑AACAA‑TC‑TTATTTACACAAATTTGCCTTCACCCCGCAAACACA‑AGTTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACt                                                                                                             <  1:401604/231‑1 (MQ=255)                                                                                                                     gt‑gCATGCAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCGCTTGAC‑AAGAATACAAACTTTT‑T‑AACAC‑AC‑TTATCTACTCGAGTTTGGCTTGCATCCGCATAAAAC‑TGGTAACCCCCATTAACATAGCGCCATTACACC‑TTAACCATGGTGGCGATATATTCATGTCATCCATACGCAATACAACCATTGCAAAGTACTGTTTGCATAGTTGACTaaaaa                                                                                                        >  2:271075/1‑237 (MQ=255)                                                                                                                        ggcaggaaaTTTAATCGCCTCTCCT‑TTGACCAT‑GGGAAAAATAAATAAAG‑GCGTGTCCTTTGAC‑ACAAATA‑AAAATTTT‑C‑AAAACTAT‑TTATC‑ACCTGAATTTTGGTTGCCACCCAAAAAACCAAGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAata‑t                                                                                                      <  1:947642/231‑1 (MQ=255)                                                                                                                            taaattttAAT‑GCCCCCTCC‑TGGAGAACGGGAAAAAAA‑AATGAAA‑GGGGGCCCCTTGAC‑AAAAATAAAAAATTTA‑C‑AACAC‑TC‑TTATCTACCCGAATTTGGCTTGCACCCAAAAAACCC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACAt                                                                                                 <  1:138100/234‑1 (MQ=255)                                                                                                                            gaatttttAAT‑CCCCCCTAC‑TTGAACAGGGGGAAAAAT‑AAAGAAG‑GCGTCTCCCTT‑AC‑AAAAAAAAAAAATTTTAC‑AACCC‑TT‑TTATCTCCTAAAATTTGGCTTGCACCCAAAAAACCC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACAt                                                                                                 <  1:1226981/234‑1 (MQ=255)                                                                                                                            aaataTTTACT‑GCCCCCCCC‑TGGAGCA‑GGGGAAAAAA‑AAAGAAAGGCTTTCCCCTAGAC‑AAGAAAAAAAATTTTC‑C‑ACCCC‑AT‑TTTTCTACTCTATTTGGGCTTGCACCCAAAAAACCC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACAt                                                                                                 <  1:249728/235‑1 (MQ=255)                                                                                                                              agagTTAAC‑GCCTCGTCC‑TGGAGCATGGGGAAAAAT‑AAGAAAA‑GTGGCTCCTTAGAC‑A‑GAAAACAAAATTTTCC‑AACAT‑AT‑TTATCTACTAGATTTTGGCTTCCTCCCAAAAAAACC‑AGGTAGCCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATaa                                                                                               <  1:239877/239‑1 (MQ=255)                                                                                                                                 tttAAG‑CCCCCCGCC‑GTGAACAACGGGAAAAAA‑AAGAAAG‑GCTTCTCCCTTGAC‑ACAAAAAAAAATTTTC‑C‑AACAC‑AC‑TTATCTACCCAATTTGGGCTTGCACCCGAAAAAACA‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACa                                                                                            <  1:18165/239‑1 (MQ=255)                                                                                                                                             ctcc‑tTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGt                                                                                                                             >  1:1230571/1‑196 (MQ=255)                                                                                                                                                         tCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAata                                                                                                        >  1:47405/1‑206 (MQ=255)                                                                                                                                                          cGGGAGAAAT‑AATAACA‑GCCTGTCCCTTGAC‑ACGCATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGACTTTGGCTTGCATCCGCCAAACCC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATCATCCATGTTGAGCATTTATTCATGTCTTGCATACGCAATTATACAATTCCCATGCAGTGATTGAATTGTTGATTTAAAA‑TTACATAAAAAAATACCTGTTATTTAAtatacc                                                                      >  2:218223/1‑236 (MQ=255)                                                                                                                                                           gggAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCCTGGTGAGAATCACTTTATGTCTTGCATACTCAATTAGACAATTCCCATGGAGTGATTGCATAGTTGAATTAATATTTACA‑AAAAAAATTTCTTTTTTTTAATGTAACa                                                                     >  2:868180/1‑238 (MQ=255)                                                                                                                                                                aaaT‑AAAGAAA‑GCTTTCCATTTCAC‑ACAAAAACAAATTTCA‑C‑AACTC‑CC‑TTACCCACTCAAATTTGCCTTGCCACCCAAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACTCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCAcgccgc                                                               <  1:315135/239‑1 (MQ=255)                                                                                                                                                                                                aTACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAg                                                                                                                   >  1:610798/1‑159 (MQ=255)                                                                                                                                                                                                           t‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAAtt                                                                          >  1:504669/1‑187 (MQ=255)                                                                                                                                                                                                             c‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCACGCCGCCCTCTTAAGTCAAATTGATTGATAAATAAATTTAAACGAAg                      >  1:120650/1‑239 (MQ=255)                                                                                                                                                                                                                   ctcttttttccaCTCGATTTGGGTTTGCACCCAAAAAACCT‑AGGACACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCACGCCGCCCTCTTAAGTCAAATTGATTGATAAATAAATTTAAACGAAGCgg                   <  1:1214691/228‑1 (MQ=255)                                                                                                                                                                                                                                tCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGAGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTAATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCACGCCACCCTCTTAAGTCAAATTGATTGATAAATAAATTTAAACAAAACGGGAAAAAAgaggaa      >  2:1288753/1‑234 (MQ=255)                                                                                                                                                                                                                                    aTTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCACGCCGCCCTCTTAAGTCAAATTGATTGATAAATAAATTTAAACGAAGCGGGAGAACAGGATGATAAt  >  1:1139546/1‑239 (MQ=255)                                                                                                                                                                                                                                          cTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCACGCCGCCCTCTTAAGTCAAATTGATTGATAAATAAATTTAAACGAAGCGGGAGAACa            >  1:706131/1‑223 (MQ=255)                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                             TACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGG‑AATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTTTT‑ATGT‑GCATGAAGATTTAAT‑GCCTCCTCC‑TTGAGCATCGGGAGAAAT‑AATGAAA‑GCGTGTCCCTTGAC‑ACGAATACAAAATTTT‑C‑AACAC‑AC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACC‑AGGTCACCGCCATTAAAATAGCGATATT‑CACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCATAGTTGACTTAATA‑TTACATAAACATATTACTGTTTATTAATGTAGCACGCCGCCCTCTTAAGTCAAATTGATTGATAAATAAATTTAAACGAAGCGGGAGAACAGGATGATAAT  >  NC_000913/3665471‑3665924

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑