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
A5 F71 I0 R1	28	65.2	1510494	95.1%	1436479	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,372,751	A→T	6.6%	L342* (TTA→TAA)	pbuG ←	Guanine/hypoxanthine permease PbuG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,372,751	0	A	T	6.6%	200.3 / 4.0	72	L342* (TTA→TAA)	pbuG	Guanine/hypoxanthine permease PbuG
Reads supporting (aligned to +/- strand): ref base A (34/33); new base T (2/3); total (36/36)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.57e-01

TGAAGGCTGGCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAA  >  USA300TCH1516_ALE/2372611‑2372890

tGAAGGCTGGCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACATCGATTAACGGACTAAAGAACAGCGCTa                                                                                                                                             >  2:121970/1‑141 (MQ=255)

      cTGGCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTCAAGAACAGCGCTTATAGGa                                                                                                                                       >  1:198086/1‑141 (MQ=255)

          cACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTACCGGACTAAAGAACAGCGCTAGTAGGaaaaa                                                                                                                                   >  1:557497/1‑139 (MQ=255)

          cACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAAGAaaca                                                                                                                                   >  2:397565/1‑141 (MQ=255)

             tGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAaacaaca                                                                                                                                <  1:190441/141‑1 (MQ=255)

                aaCTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGGTCAACGTCCTAAAGAACAGCGCTAACAGTAAACAACAAcc                                                                                                                             >  2:250317/1‑141 (MQ=255)

                 aCTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCTTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCt                                                                                                                            <  2:166831/141‑1 (MQ=255)

                  tttacaaaCTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTg                                                                                                                           <  2:78284/136‑1 (MQ=255)

                  cTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTACGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTg                                                                                                                           <  1:209311/141‑1 (MQ=255)

                  cTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTg                                                                                                                           <  1:294489/141‑1 (MQ=255)

                    tCAAAACTTTTCCAGTGTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGtt                                                                                                                         <  2:293590/141‑1 (MQ=255)

                    tCAAAACTTTTCCAGATTATCTCAGCAAAGTTTGCAGCCATTAATACAACTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAATAGCGCTAATAGGCAACAACAACCTAtt                                                                                                                         >  1:22750/1‑141 (MQ=255)

                    tCAAAACGTGTGCAGTCGATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGtt                                                                                                                         <  2:96486/141‑1 (MQ=255)

                     cAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCATTCTCGCTTGTGTCGTAACTGCACTTATTACAACAGCGATTAACTGACTAAAGAACAGCGCTAATAGGAAAAAACAACCTGTTa                                                                                                                        >  1:477931/1‑141 (MQ=255)

                              tCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGCACAGCGCTAATAGGAAACAACAACCAATTACGATACTAg                                                                                                               >  2:425542/1‑141 (MQ=255)

                                cAGTTTATCTTAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCa                                                                                                             <  2:474601/141‑1 (MQ=255)

                                           aGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCACATCCTGTTCt                                                                                                  >  1:487451/1‑141 (MQ=255)

                                           aGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCt                                                                                                  >  1:377068/1‑141 (MQ=255)

                                            gCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTa                                                                                                 <  1:540807/141‑1 (MQ=255)

                                            gCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTa                                                                                                 <  1:688407/141‑1 (MQ=255)

                                                aGTTTGCAGCCATTAATACACATACCACCACTCAGGCTGGTGTAGTAACTGCACTTGTTCCAACAGAGATTAACGGCCTAAAGACAAGCGCTAATAGGAAAGAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCAc                                                                                             >  1:311678/1‑141 (MQ=255)

                                                    tGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATATGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCCCCTAc                                                                                         >  2:139053/1‑141 (MQ=255)

                                                         ccATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCaa                                                                                    <  1:222689/141‑1 (MQ=255)

                                                          cATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAac                                                                                   <  2:382924/141‑1 (MQ=255)

                                                           aTTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAaca                                                                                  >  2:30126/1‑141 (MQ=255)

                                                           aTTAATACACCTACCACCACGAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAaca                                                                                  <  2:268587/141‑1 (MQ=255)

                                                                tACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAAAAGTGATAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGGAACACCTGa                                                                             >  1:552967/1‑141 (MQ=255)

                                                                 acacCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGaa                                                                            >  2:136640/1‑141 (MQ=255)

                                                                  cacCTACCACCACTTAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGCACTAATTAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAg                                                                           <  2:371227/141‑1 (MQ=255)

                                                                  cacCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAg                                                                           <  1:321861/141‑1 (MQ=255)

                                                                    ccTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGtt                                                                         >  1:532888/1‑141 (MQ=255)

                                                                     cTACCACCACTAAGGCTGGTGTGCGGGCGGGACTTGTTACAACGGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTg                                                                        <  1:102109/141‑1 (MQ=255)

                                                                     cTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTg                                                                        <  1:134057/141‑1 (MQ=255)

                                                                       accaccACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACCAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTgct                                                                      >  2:600672/1‑139 (MQ=255)

                                                                              cTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAACGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGatat                                                               >  2:535099/1‑141 (MQ=255)

                                                                                aaGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaa                                                             >  1:596137/1‑141 (MQ=255)

                                                                                 gggggggTGTCGTAACTGCACTGGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaag                                                            <  2:214661/136‑1 (MQ=255)

                                                                                 aGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaag                                                            <  1:733584/141‑1 (MQ=255)

                                                                                 aGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaag                                                            <  1:573377/141‑1 (MQ=255)

                                                                                  ggCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaaga                                                           <  1:614916/141‑1 (MQ=255)

                                                                                       gtgtCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAgttg                                                      <  1:138986/141‑1 (MQ=255)

                                                                                          tCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAgttgttt                                                   >  1:312017/1‑140 (MQ=255)

                                                                                          tCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGttgttg                                                   >  1:435363/1‑141 (MQ=255)

                                                                                          tCGTAACTGCACTTGTTACAACAGAGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCACCACCTGAAGTTGATTCGATATATGAAgttgtta                                                   >  1:401633/1‑140 (MQ=255)

                                                                                          tCGTAACTGCACTCGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAACCAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGttgttg                                                   <  1:523414/141‑1 (MQ=255)

                                                                                          tCGTAACCGCACTTGTTACAACAGCGAATAACGGACTAAAGAACAGCGCTAATAGCAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGttgttg                                                   >  2:439904/1‑141 (MQ=255)

                                                                                           cGTAACTGCACTTGTTACAACAGCGATTAACGTACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTtgttgt                                                  <  1:629790/141‑1 (MQ=255)

                                                                                              aaCTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATCAGAAGTTGTTGTAgt                                               >  1:275441/1‑141 (MQ=255)

                                                                                                cTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATCATCGCGTGAATTAGGCGATGACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAgttg                                             >  1:550881/1‑141 (MQ=255)

                                                                                                cTGCACTTGGTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAgttg                                             <  2:490731/141‑1 (MQ=255)

                                                                                                 tGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAgttgt                                            <  1:135499/141‑1 (MQ=255)

                                                                                                  gCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAgttgtt                                           <  1:439317/141‑1 (MQ=255)

                                                                                                  gCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAgttgtt                                           <  1:629435/141‑1 (MQ=255)

                                                                                                    aCTTGTTACAAAAGCGATTAACGGACTAAAGAACAGCGCTAAGAGGAAACAACGACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTcc                                         <  2:567227/141‑1 (MQ=255)

                                                                                                     cTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCa                                        >  1:644931/1‑141 (MQ=255)

                                                                                                     cTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCa                                        >  1:270500/1‑141 (MQ=255)

                                                                                                     cTTGTTACAACAGAGATTAACGGAATAAAGACCAGCGATAATAGGACAACACCTCCCGCTCCGCCCCTACACGACACTCTTCTAACACCTACAGCAACACCCGCAGTTCTTAGCGTGCAAGAAGTTGTTGTAGTTGTTCCa                                        <  2:377068/141‑1 (MQ=255)

                                                                                                            caacaGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTg                                 >  1:254214/1‑141 (MQ=255)

                                                                                                              acaGTGATGAACGTACTAAAGGACAGCTCGAATAGGAAACAACAACCAGTTAGGATAGTAGCAAATCGTGTGCTAGCAGCTACAGCAACATCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGAt                               <  2:500463/141‑1 (MQ=255)

                                                                                                               caGCGATTAACGGACGAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATc                              <  2:550891/141‑1 (MQ=255)

                                                                                                                 ccGATTAACGGACTAACGAACAGCGCTAATAGGAAACAACACCCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACGGCAACACCTGAAGTTGAGTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCt                            <  1:125712/140‑1 (MQ=255)

                                                                                                                  cGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTa                           >  2:277036/1‑141 (MQ=255)

                                                                                                                  cGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTa                           <  1:646704/141‑1 (MQ=255)

                                                                                                                      tAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAAt                       >  1:530469/1‑141 (MQ=255)

                                                                                                                          ggACTAAAGAACAGCGCTAATAGGAAACAACACCCGGGTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTa                   <  1:139665/141‑1 (MQ=255)

                                                                                                                                     cAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATc        >  1:256550/1‑141 (MQ=255)

                                                                                                                                       gcgcTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACAACTAAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTg      >  1:49937/1‑141 (MQ=255)

                                                                                                                                         gcTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGACGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTACCGAATCCgaa    >  2:260516/1‑140 (MQ=255)

                                                                                                                                         gcTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGACGTTCTTGTAGATGTTCCAAAAACTGAGCTAACAATCCTAGCTAAAGAATCTgaa    >  2:547576/1‑140 (MQ=255)

                                                                                                                                         gcTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTgag    >  2:737804/1‑141 (MQ=255)

                                                                                                                                         gcTAATAGGAAACAACAACCTGTTACGATACTAGAAAATCCTGTTCTAGCACCCACAGCAACACCTGACGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTgtg    >  2:418050/1‑139 (MQ=255)

                                                                                                                                          cTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATTTgaga   <  1:35031/141‑1 (MQ=255)

                                                                                                                                           tAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGaa  >  1:486334/1‑141 (MQ=255)

TGAAGGCTGGCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAA  >  USA300TCH1516_ALE/2372611‑2372890

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A