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 F52 I1 R1	27	78.9	1851050	96.3%	1782561	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	396,851	G→A	G28S (GGT→AGT)	efeN →	putative deferrochelatase/peroxidase EfeN

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	396,851	0	G	A	98.8%	245.9 / NA	85	G28S (GGT→AGT)	efeN	putative deferrochelatase/peroxidase EfeN
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (52/32); minor base C (1/0); total (53/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGGATGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCGGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTACCACACCCACGCAAAAAACA  >  USA300TCH1516_ALE/396715‑396991

gggATGCTGTTAATTGATTAGGAGAGCCACTAAGTATAATGGCTGTTATTACGGAAGGACAAATTATGAACAAGTTAGCGTTATTACACCATTTTCAAGACCTACATTTCTGTAAATGTTAGGGATTGGCGGTGCCAgttt                                                                                                                                          <  2:236918/140‑3 (MQ=255)

 ggATGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTTTGATTACTGGATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGtt                                                                                                                                         >  2:841476/1‑141 (MQ=255)

 ggATGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTCCGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGAGATTGGCGGTGCCAGGGtt                                                                                                                                         >  2:24835/1‑141 (MQ=255)

 ggATGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGACGGTGCCCGTGtt                                                                                                                                         >  2:776436/1‑141 (MQ=255)

  gATGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTg                                                                                                                                        >  1:615233/1‑141 (MQ=255)

  gATGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTg                                                                                                                                        >  2:104821/1‑141 (MQ=255)

    tGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCa                                                                                                                                      >  1:312203/1‑141 (MQ=255)

        gTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTg                                                                                                                                  >  1:194864/1‑141 (MQ=255)

         ttAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCGATTgg                                                                                                                                 >  1:230827/1‑141 (MQ=255)

         ttAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTgg                                                                                                                                 >  1:791895/1‑141 (MQ=255)

         ttAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTgg                                                                                                                                 >  1:383337/1‑141 (MQ=255)

         ttAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTAGCAATTgg                                                                                                                                 >  1:187546/1‑141 (MQ=255)

                   aGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAgtggt                                                                                                                       <  2:857294/141‑1 (MQ=255)

                   aGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTCAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAgtggt                                                                                                                       <  1:869738/141‑1 (MQ=255)

                   aGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAAAGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAgtggt                                                                                                                       <  1:64933/141‑1 (MQ=255)

                     gagaGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCACGTGgggt                                                                                                                     >  2:285340/1‑141 (MQ=255)

                     gagaGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGCCGGTGCCAGTGTTGCAATTGGCGCAAGTGgcgt                                                                                                                     >  1:709380/1‑141 (MQ=255)

                      agagCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTTCATTTTTGATAATGTTATGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGtt                                                                                                                    <  2:793294/141‑1 (MQ=255)

                      agagCCACTAAGTAAAATGGCTGTGAATACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCACGTGGTGtt                                                                                                                    >  2:571255/1‑141 (MQ=255)

                       gagCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTg                                                                                                                   >  2:851034/1‑141 (MQ=255)

                          ccACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTa                                                                                                                >  1:372934/1‑141 (MQ=255)

                            aCTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGTGGTTGGTAGc                                                                                                              >  2:37608/1‑141 (MQ=255)

                            aCTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGc                                                                                                              >  2:544535/1‑141 (MQ=255)

                             cTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCa                                                                                                             >  2:355447/1‑141 (MQ=255)

                             cTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGCTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGGAGCa                                                                                                             >  2:760226/1‑141 (MQ=255)

                                aGTAAAATGGCGGTGATTACCGAACGACAAATTATAAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATCGGCGCTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCAtgt                                                                                                          <  1:30342/141‑1 (MQ=255)

                                 gTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCAtgtg                                                                                                         <  1:124413/141‑1 (MQ=255)

                                 gTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCAtgtg                                                                                                         <  1:630432/141‑1 (MQ=255)

                                     aaTGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCt                                                                                                     <  1:134833/141‑1 (MQ=255)

                                         gCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTGGCATGTGGTCTTTCa                                                                                                 >  1:841642/1‑141 (MQ=255)

                                         gCTGTGATTACTGAATGACAAATTAGGAATAAGTTAGCGATAGTACGCAATCTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCa                                                                                                 <  1:667095/141‑1 (MQ=255)

                                          cTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCCATTGGGGCAAGTGGTGTTGGTAGCATGTGGTCTTTCaa                                                                                                >  1:209525/1‑141 (MQ=255)

                                          cTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCaa                                                                                                <  1:405847/141‑1 (MQ=255)

                                           tgtgATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTAGATTTTTGAAAATGTTAGGTATTGGAGGTGCCAGTGTTGCGATTGGCGCAACTGGTGTTAGTAGCATGTGGTCTTTCaaa                                                                                               <  1:596032/141‑1 (MQ=255)

                                           tgtgAATACCGAAGCACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCaaa                                                                                               <  1:408488/141‑1 (MQ=255)

                                             tgATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATc                                                                                             <  2:336734/141‑1 (MQ=255)

                                             tgATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATc                                                                                             <  1:808693/141‑1 (MQ=255)

                                             tgATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATc                                                                                             <  1:162436/141‑1 (MQ=255)

                                             tgATTACTGAATGACAAATTATGAACAAGTGAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATc                                                                                             <  2:276671/141‑1 (MQ=255)

                                                ttACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTATTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAACTCAAt                                                                                          >  1:730460/1‑141 (MQ=255)

                                                 tACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATg                                                                                         >  2:45011/1‑141 (MQ=255)

                                                  aCTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGt                                                                                        <  1:795405/141‑1 (MQ=255)

                                                  aCTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGt                                                                                        >  1:358926/1‑141 (MQ=255)

                                                  aCTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATAAATGt                                                                                        >  1:645386/1‑141 (MQ=255)

                                                   cTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGtt                                                                                       >  1:703320/1‑141 (MQ=255)

                                                   cTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTCCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGGCTTTCAACTCaccagt                                                                                       >  2:318858/1‑136 (MQ=255)

                                                    tGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTc                                                                                      <  2:769559/141‑1 (MQ=255)

                                                    tGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTc                                                                                      <  2:372934/141‑1 (MQ=255)

                                                    tGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTc                                                                                      <  2:128455/141‑1 (MQ=255)

                                                            aaaTTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACAcc                                                                              >  1:354554/1‑141 (MQ=255)

                                                                 aTGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCagaag                                                                         <  2:494785/141‑1 (MQ=255)

                                                                  tGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTCTTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTAAAATCAAAGTTCCATACACGagaaga                                                                        >  2:390499/1‑141 (MQ=255)

                                                                     aCAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATcc                                                                     >  2:137758/1‑141 (MQ=255)

                                                                     aCAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATcc                                                                     >  1:799841/1‑141 (MQ=255)

                                                                         gTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGaa                                                                 <  2:770470/141‑1 (MQ=255)

                                                                          ttAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGGGTTGGTAGCATGTGGTCTTTCAACTCAATGTTCAATACACCAGAAGATGCGGaaa                                                                >  2:721286/1‑141 (MQ=255)

                                                                           tAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGaaaa                                                               >  2:821756/1‑141 (MQ=255)

                                                                            aaCGATAGTATGCAATTTTCAAGACGGACATTTTTGAAAATGTTAGGTATGGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGaaaaa                                                              <  2:249525/141‑1 (MQ=255)

                                                                            aaCGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCACTGTTCAATACACCAGAAGATCCGGaaaaa                                                              >  1:15255/1‑141 (MQ=255)

                                                                            aaCGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGaaaaa                                                              <  2:114512/141‑1 (MQ=255)

                                                                            aaCGATAGTACGCAATTGTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGGTGGTAGCATGTGGTCTTTCAAATCAATGTTCCATACACCAGCGGATCCGGaaaca                                                              >  2:733540/1‑139 (MQ=255)

                                                                             aCGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACCCCAGAAGATCCGGAAAAAg                                                             >  1:112844/1‑141 (MQ=255)

                                                                             aCGATAGTACGCAATTTTCAAGACGGACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAg                                                             <  1:269550/141‑1 (MQ=255)

                                                                                  aGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACAACAGAAGATCAGGAAAAAGATGCg                                                        >  1:612788/1‑141 (MQ=255)

                                                                                  aGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGATATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCACATCAATGTTCAATACACGAGAAGGGCCGGAAAAAGATGCg                                                        >  1:227630/1‑141 (MQ=255)

                                                                                      cGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGTATATCCGGAAAAAGATGCGTATg                                                    <  1:539333/141‑1 (MQ=255)

                                                                                            tttCAAGACGTACATTTTTTAATATTTTTGGTATTGGCGGTACCAGTGTTGCAATTGGCGCAAGTGGTGTGGGTAGCATGTGGTCTTTCAAATCAATGTTCAATAAACCAGAAGACCCGGAAAAAGATGCGTATGAAttat                                              >  2:498597/1‑139 (MQ=255)

                                                                                            tttCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAACACGATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGACtttt                                              >  1:122884/1‑141 (MQ=255)

                                                                                            tttCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACAGGAAGGTCAGGAAAAAGATGCGTATGAAtttt                                              >  1:881602/1‑141 (MQ=255)

                                                                                            tttAAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGCTCCGGAAAAAGATGCGTATGAAtttt                                              >  2:700786/1‑141 (MQ=255)

                                                                                                aaGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATgg                                          >  1:134888/1‑141 (MQ=255)

                                                                                                        aaTTTTGGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGc                                  <  2:302371/140‑1 (MQ=255)

                                                                                                           ttttGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAAc                               <  1:698294/141‑1 (MQ=255)

                                                                                                           tgttGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAAc                               <  1:297524/139‑1 (MQ=255)

                                                                                                              tGAAAATGTTAGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAg                            <  1:73551/141‑1 (MQ=255)

                                                                                                                        aGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTACcac                  >  1:428862/1‑141 (MQ=255)

                                                                                                                        aGGTATTGGCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTACcac                  >  1:613191/1‑141 (MQ=255)

                                                                                                                              tGGCGGGGCCAGTGTTGAAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTATTTTAATTCAATGGTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTAAGGTAAAGTGCAACCAGGCATTACCACACCCAc            <  1:211580/141‑1 (MQ=255)

                                                                                                                                gCGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTAccacgcccacgc          >  1:181459/1‑141 (MQ=255)

                                                                                                                                 cGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTACCACAACCAGGCa         >  2:691631/1‑141 (MQ=255)

                                                                                                                                 cGGTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTGCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTCCCACACCCCCgaa         >  2:204367/1‑139 (MQ=255)

                                                                                                                                  ggTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGCTCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTACCACACCCACGCaa        >  2:666318/1‑141 (MQ=255)

                                                                                                                                  ggTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATCCGTACGAATTTTATGGTAAGGCGCAACCAGGCATTACCACACCCACGCaa        >  2:59415/1‑141 (MQ=255)

                                                                                                                                  ggTGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAAGGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGGAACCAGGCATTACCACACCCACGCaa        >  1:556451/1‑141 (MQ=255)

                                                                                                                                    tGCCAGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTCCCACACCCACGCaaca      >  2:129215/1‑139 (MQ=255)

                                                                                                                                        ggTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATGCGGAAAAAGATGCGTATGAATTTTATGGTAAAGGGCAACCAGGCATTACACAACCCACGCAAAAAACa  >  2:812208/1‑141 (MQ=255)

CGGATGCTGTTAATGCATTAGGAGAGCCACTAAGTAAAATGGCTGTGATTACTGAATGACAAATTATGAACAAGTTAACGATAGTACGCAATTTTCAAGACGTACATTTTTGAAAATGTTAGGTATTGGCGGTGCCGGTGTTGCAATTGGCGCAAGTGGTGTTGGTAGCATGTGGTCTTTCAAATCAATGTTCAATACACCAGAAGATCCGGAAAAAGATGCGTATGAATTTTATGGTAAAGTGCAACCAGGCATTACCACACCCACGCAAAAAACA  >  USA300TCH1516_ALE/396715‑396991

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