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
A1 F104 I1 R1	32	52.7	1196080	90.6%	1083648	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	195,286	T→A	intergenic (‑97/‑82)	USA300HOU_0183 ← / → USA300HOU_0184	hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	195,286	0	T	A	98.7%	253.8 / ‑4.0	76	intergenic (‑97/‑82)	USA300HOU_0183/USA300HOU_0184	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand): ref base T (1/0); new base A (25/50); total (26/50)
Fisher's exact test for biased strand distribution p-value = 3.42e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01

TTGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTTAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAG  >  CP000730/195149‑195422

ttGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTaaaa                                                                                                                                         <  1:154377/141‑1 (MQ=255)

          cTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCtt                                                                                                                               <  1:313142/141‑1 (MQ=255)

          cTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCtt                                                                                                                               <  1:1153150/141‑1 (MQ=255)

          cTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCtt                                                                                                                               >  1:1068502/1‑141 (MQ=255)

          cTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCtt                                                                                                                               >  1:658827/1‑141 (MQ=255)

              aCTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAata                                                                                                                           <  1:695569/141‑1 (MQ=255)

                             ttCTTTATCTATAATGATAGCCCCGTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAGATATCTTAATATCCTTGTAATCCgtt                                                                                                            >  1:874944/1‑139 (MQ=255)

                             ttCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGAt                                                                                                            >  1:511032/1‑141 (MQ=255)

                                 taaTCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGa                                                                                                        <  1:1160709/139‑1 (MQ=255)

                                   aTCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAAt                                                                                                      >  1:1168485/1‑141 (MQ=255)

                                           tGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATA‑TTAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAat                                                                                            >  1:1078113/1‑141 (MQ=255)

                                           tGATAGCCCCCTATATATATGTTGATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTaa                                                                                             <  1:584986/141‑1 (MQ=255)

                                            gATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAat                                                                                            <  1:498341/141‑1 (MQ=255)

                                              tAGCCCCCTATATATATGTATATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTATTAAATTTGTAATTCGATAAGAATTAT‑aataatct                                                                                          >  1:633754/1‑139 (MQ=255)

                                                gCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATAtt‑t                                                                                       <  1:502206/141‑1 (MQ=255)

                                                gCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAACAATTAT‑AGTAATAtt‑t                                                                                       <  1:594259/141‑1 (MQ=255)

                                                 cccccTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATAtt‑tt                                                                                      <  1:816180/141‑1 (MQ=255)

                                                  ccccTCAATATATGCTTATTTACTTATCCCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATAtt‑ttt                                                                                     <  1:406797/141‑1 (MQ=255)

                                                  ccccTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATAtt‑ttt                                                                                     <  1:794045/141‑1 (MQ=255)

                                                     cTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCa                                                                                  >  1:345504/1‑141 (MQ=255)

                                                     cTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCa                                                                                  >  1:148595/1‑141 (MQ=255)

                                                     cTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCa                                                                                  >  1:781164/1‑141 (MQ=255)

                                                       atatatatGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATTAGAATTAT‑AGTAATATT‑TTTTCAAc                                                                                >  1:361949/1‑141 (MQ=255)

                                                       atatatatGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAGGAATTAT‑AGTAATATT‑TTTTCAAc                                                                                >  1:203675/1‑141 (MQ=255)

                                                          tatatGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCTTTATGAATTAT‑AGTAATATT‑TTTTCAACCAt                                                                             >  1:603963/1‑141 (MQ=255)

                                                               gTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTta                                                                        <  1:360822/141‑1 (MQ=255)

                                                                tttatttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTCAAGCGTTATATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTtat                                                                       <  1:275155/141‑1 (MQ=255)

                                                                tttatttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTtat                                                                       <  1:228004/141‑1 (MQ=255)

                                                                 ttatttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTtata                                                                      <  1:629204/141‑1 (MQ=255)

                                                                 ttatttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTtata                                                                      <  1:324518/141‑1 (MQ=255)

                                                                 ttatttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAAAAATTGTtata                                                                      <  1:875468/141‑1 (MQ=255)

                                                                   ttttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATagg                                                                    <  1:495250/140‑1 (MQ=255)

                                                                   atttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAAGATCTTAATATCATTGTAATCCGATAAGAATTAT‑ATTAATATT‑TTTTCAACCATTGTTATagg                                                                    <  1:344947/141‑1 (MQ=255)

                                                                    tttaCTTATAGCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATagga                                                                   >  1:864466/1‑141 (MQ=255)

                                                                    tttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATaggg                                                                   >  1:273323/1‑140 (MQ=255)

                                                                         ttATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCt                                                              <  1:1028969/141‑1 (MQ=255)

                                                                         ttATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCt                                                              <  1:533077/141‑1 (MQ=255)

                                                                         ttATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCt                                                              <  1:927976/141‑1 (MQ=255)

                                                                         ttATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCt                                                              <  1:1081834/141‑1 (MQ=255)

                                                                         ttATACACTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCt                                                              <  1:145410/141‑1 (MQ=255)

                                                                           ataCCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATAGACTTATAAATAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCtta                                                            >  1:91700/1‑141 (MQ=255)

                                                                           ataCCCTAAAATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCtta                                                            <  1:446047/141‑1 (MQ=255)

                                                                                    cATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACa                                                   >  1:820728/1‑141 (MQ=255)

                                                                                     aTGATTTTTATGCTCTTTGAATATATCGTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCCATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATCGGAGGTCTTATTAATGACat                                                  <  1:722998/141‑1 (MQ=255)

                                                                                      tGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACatt                                                 >  1:675357/1‑141 (MQ=255)

                                                                                       gATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTCCCGCAGGAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACatta                                                >  1:276619/1‑141 (MQ=255)

                                                                                           tttATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTAtttt                                            <  1:417468/141‑1 (MQ=255)

                                                                                             tataCTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTtta                                          <  1:612698/141‑1 (MQ=255)

                                                                                                aCTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAGAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATGTttatta                                       >  1:208111/1‑141 (MQ=255)

                                                                                                aCTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTttatta                                       >  1:44437/1‑141 (MQ=255)

                                                                                                aCTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTttatta                                       >  1:1078028/1‑141 (MQ=255)

                                                                                                   ctatGAAAATATATTTTACAGAATTTTCTCTCAATATTAAAAAAAATATCATAATATCCTTGTAATCCGATAAGAATGAT‑AGTAATATT‑TTTTCAACCATTGCTAGAGGAGGTCTTATTAATGACATTATTTTTATTAGaa                                    <  1:956351/138‑1 (MQ=255)

                                                                                                   ctTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGaa                                    <  1:956465/141‑1 (MQ=255)

                                                                                                   ctTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGaa                                    <  1:1054658/141‑1 (MQ=255)

                                                                                                          aaTATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACa                             >  1:1080723/1‑141 (MQ=255)

                                                                                                          aaTATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACa                             >  1:341056/1‑141 (MQ=255)

                                                                                                           atatatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACaa                            <  1:1081648/141‑1 (MQ=255)

                                                                                                            tatatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAAt                           <  1:742139/141‑1 (MQ=255)

                                                                                                            tatatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAAt                           <  1:442505/141‑1 (MQ=255)

                                                                                                                 tttACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGa                      <  1:903414/141‑1 (MQ=255)

                                                                                                                 tttACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTAGAGGAGGTATTCTTAATGACATTATTTTTATTAGAAGCTAACAATCTTGa                      <  1:169983/141‑1 (MQ=255)

                                                                                                                   tACAGAATTTTATCTAAATATTAAAAAAAATATCTTACCATCCTAGCAATCGGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGAtt                    <  1:1112689/141‑1 (MQ=255)

                                                                                                                   tACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGAtt                    <  1:850418/141‑1 (MQ=255)

                                                                                                                    accgAACTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGAttt                   <  1:635524/138‑1 (MQ=255)

                                                                                                                        aaTTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCa               <  1:1100837/141‑1 (MQ=255)

                                                                                                                        aaTTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCa               <  1:1100872/141‑1 (MQ=255)

                                                                                                                        aaTTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCa               <  1:944638/141‑1 (MQ=255)

                                                                                                                            ttATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCaa           <  1:742730/141‑1 (MQ=255)

                                                                                                                            ttATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGAATCaa           >  1:14372/1‑141 (MQ=255)

                                                                                                                             tATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACGTTATTTTTATTAGAAGCTAACAATCTTGATTTTGCTTCTAc          >  1:695795/1‑141 (MQ=255)

                                                                                                                             tATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAAc          <  1:1029294/141‑1 (MQ=255)

                                                                                                                             tATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAAc          <  1:147211/141‑1 (MQ=255)

                                                                                                                                cTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AG‑AAGATTGATTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGaa       <  1:275249/141‑1 (MQ=255)

                                                                                                                                   aaTATTAAAAAAAATATCTTAATATCCTTGTAATCCTATAAGAATTCTAAATAAT‑TT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCAGCAACGAaaga    <  1:863198/141‑1 (MQ=255)

                                                                                                                                     tatTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAaagaag  <  1:176620/141‑1 (MQ=255)

                                                                                                                                     tatTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAaagaag  <  1:1038776/141‑1 (MQ=255)

                                                                                                                                     aatTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAaagaag  <  1:1038579/140‑1 (MQ=255)

TTGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTTAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTAT‑AGTAATATT‑TTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAG  >  CP000730/195149‑195422

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A