Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A10 F28 I1 R1	126	51.4	1736588	99.0%	1719222	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,308,664	T→C	Q87Q (CAA→CAG)	nlpI ←	lipoprotein NlpI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,308,664	0	T	C	96.9%	214.0 / ‑2.6	65	Q87Q (CAA→CAG)	nlpI	lipoprotein NlpI
Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (30/33); total (31/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

CGTAGTTGTAAGTTGGATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCTTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTCCATACGTGCCAGAA  >  NC_000913/3308531‑3308797

cgTAGTTGTAAGTTGGATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGaa                                                                                                                                 >  2:98635/1‑140 (MQ=255)

   aGTTGTAAGTTGGATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGaaaaa                                                                                                                              >  1:747893/1‑140 (MQ=255)

               gATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCt                                                                                                                  >  2:609640/1‑140 (MQ=255)

               gATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCt                                                                                                                  >  2:356937/1‑140 (MQ=255)

               gATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCt                                                                                                                  >  1:744711/1‑140 (MQ=255)

               gATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCt                                                                                                                  >  1:29682/1‑140 (MQ=255)

               gATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCt                                                                                                                  >  1:842516/1‑140 (MQ=255)

               gATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCT‑AGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTa                                                                                                                 >  2:23106/1‑140 (MQ=255)

                 tCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTaa                                                                                                                <  2:747893/140‑1 (MQ=255)

                  cAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAAt                                                                                                               <  1:800958/140‑1 (MQ=255)

                    aGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGc                                                                                                             >  2:279751/1‑140 (MQ=255)

                       tCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCt                                                                                                          <  2:174290/140‑1 (MQ=255)

                       tCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCAAAAAATCGTTACGCGCTAATGCCCt                                                                                                          <  1:391671/140‑1 (MQ=255)

                         aaGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCTTGCGAAAAATCGTTACGCGCTAATGCCCTCa                                                                                                        >  1:446371/1‑140 (MQ=255)

                          aGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAg                                                                                                       >  1:71795/1‑140 (MQ=255)

                            tACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGAc                                                                                                     <  2:211273/140‑1 (MQ=255)

                            tACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGAc                                                                                                     <  1:41479/140‑1 (MQ=255)

                               aGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCga                                                                                                  <  1:793658/140‑1 (MQ=255)

                               aGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCga                                                                                                  <  2:29682/140‑1 (MQ=255)

                               aGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCga                                                                                                  <  1:162840/140‑1 (MQ=255)

                                gAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCTTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCgag                                                                                                 <  2:446371/140‑1 (MQ=255)

                                gAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCga                                                                                                  >  1:110826/1‑139 (MQ=255)

                                gAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCga                                                                                                  <  2:110826/139‑1 (MQ=255)

                                 aaTCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCgaga                                                                                                <  2:744711/140‑1 (MQ=255)

                                 aaTCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCgaga                                                                                                <  2:725286/140‑1 (MQ=255)

                                 aaTCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCgaga                                                                                                <  2:71795/140‑1 (MQ=255)

                                 aaTCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCgaga                                                                                                >  1:512766/1‑140 (MQ=255)

                                  aTCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGAc                                                                                               <  2:812334/140‑1 (MQ=255)

                                  aTCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGAc                                                                                               <  2:512766/140‑1 (MQ=255)

                                   tCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCT‑AGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTa                                                                                             <  1:23106/140‑1 (MQ=255)

                                    cAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTa                                                                                             <  1:606936/140‑1 (MQ=255)

                                    cAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTa                                                                                             <  1:278870/140‑1 (MQ=255)

                                    cAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTa                                                                                             <  1:98635/140‑1 (MQ=255)

                                           ttCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATaca                                                                                      >  1:404040/1‑140 (MQ=255)

                                                     gcaTCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCcgcg                                                                            <  2:842516/140‑1 (MQ=255)

                                                      caTCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTc                                                                                >  1:581291/1‑135 (MQ=255)

                                                      caTCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTc                                                                                <  2:581291/135‑1 (MQ=255)

                                                       aTCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCt                                                                          <  1:837152/140‑1 (MQ=255)

                                                                gcctgcctGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATaaaa                                                                 >  2:857424/1‑140 (MQ=255)

                                                                 cctgcctgCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCt                                                                          <  2:206155/130‑1 (MQ=255)

                                                                 cctgcctgCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCt                                                                          >  1:206155/1‑130 (MQ=255)

                                                                 cctgcctgCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAg                                                                >  2:509866/1‑140 (MQ=255)

                                                                                        tAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTa                                         >  1:452443/1‑140 (MQ=255)

                                                                                             aaTTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGcc                                    <  2:381143/140‑1 (MQ=255)

                                                                                                      cTTCAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCa                           >  1:427809/1‑140 (MQ=255)

                                                                                                         cAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCa                           <  1:287139/137‑1 (MQ=255)

                                                                                                         cAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCa                           >  2:287139/1‑137 (MQ=255)

                                                                                                         cAGGCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAgg                        >  2:448078/1‑140 (MQ=255)

                                                                                                           ggCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGAt                      <  2:452443/140‑1 (MQ=255)

                                                                                                            gCATATCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGAtt                     <  1:609640/140‑1 (MQ=255)

                                                                                                                atCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGtt                 >  1:817528/1‑140 (MQ=255)

                                                                                                                atCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGtt                 <  2:817528/140‑1 (MQ=255)

                                                                                                                 tCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGa                                 >  1:787867/1‑123 (MQ=255)

                                                                                                                 tCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGa                                 <  2:787867/123‑1 (MQ=255)

                                                                                                                 tCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGAtt                     <  2:584348/135‑1 (MQ=255)

                                                                                                                 tCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGAtt                     >  1:584348/1‑135 (MQ=255)

                                                                                                                 tCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTc                >  1:858041/1‑140 (MQ=255)

                                                                                                                 tCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTc                >  2:304104/1‑140 (MQ=255)

                                                                                                                 tCCGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTc                >  2:845807/1‑140 (MQ=255)

                                                                                                                  ccGGTCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTcc               <  2:591361/140‑1 (MQ=255)

                                                                                                                      tCGGATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTCCATAc           >  2:295475/1‑140 (MQ=255)

                                                                                                                        ggATTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTCCATACGt         <  1:509866/140‑1 (MQ=255)

                                                                                                                          aTTGCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTCCATACGTGc       >  1:255686/1‑140 (MQ=255)

                                                                                                                             gCCAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTCCATACGTGCCAg    >  1:522858/1‑140 (MQ=255)

                                                                                                                               cAGCGCCTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTCCATACGTGCCAGaa  <  2:404040/140‑1 (MQ=255)

CGTAGTTGTAAGTTGGATCAAGCTCAAGTACAGAATCAAACGCTTCATAGGCAGCATCAAAATTGCCTGCCTGCGTTAAATATATGCCTAAGTAATTGAATACTTCAGGCATATCCGGTCGGATTGCCAGCGCTTGCGAAAAATCGTTACGCGCTAATGCCCTCAGACCGAGACTATCATACAACACTCCGCGCTCATATAAAAGCTGTGCGCGTTCGTCATCGGTTAAAGCCCGACTGGCAAGGATTTGTTCCATACGTGCCAGAA  >  NC_000913/3308531‑3308797

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A