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
A19 F166 I1 R1	28	91.5	1999278	96.0%	1919306	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	2,289,325	C→A	Q55H (CAG→CAT)	cdaA ←	Cyclic di‑AMP synthase CdaA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,289,325	0	C	A	98.8%	241.6 / NA	86	Q55H (CAG→CAT)	cdaA	Cyclic di‑AMP synthase CdaA
Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (51/32); total (54/32)
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

AAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAACGTACTGAG  >  USA300TCH1516_ALE/2289187‑2289462

aaaGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATctgatg                                                                                                                                         >  2:896448/1‑141 (MQ=255)

 aaGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATAATACTTATCtgatga                                                                                                                                        >  1:800826/1‑141 (MQ=255)

     tACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCCGTCAAGTTCAATATCATAATAATCTAGTGACCaa                                                                                                                                    >  2:37982/1‑141 (MQ=255)

      acttctTCCAAGTTGTTCTAACGCACGTCTATTTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCTCATTGAATAACGATATCGAATAATTTATATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAAt                                                                                                                                   <  2:19744/138‑1 (MQ=255)

       ccTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGCCCAATa                                                                                                                                  >  1:262007/1‑141 (MQ=255)

       ccTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATa                                                                                                                                  >  2:270676/1‑141 (MQ=255)

        ctctACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATaa                                                                                                                                 >  2:515999/1‑141 (MQ=255)

               aaGTTGTTCTAACGCACGTCTAATTTCTGGTTTGAATATTACTATTAAAGCTAATACCCCCCAGTGAATAACGATATCGAATAATTTAGATGCTGAAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTAc                                                                                                                          <  1:436883/141‑1 (MQ=255)

                 gttgttCTAACGCACGCCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTa                                                                                                                        >  1:553190/1‑141 (MQ=255)

                  ttgttCTAACGCACGTCTAGTTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATAGCATACTTATCTGATGACCAAGAACAATTACTaa                                                                                                                       >  2:557170/1‑141 (MQ=255)

                  ttgttCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTaa                                                                                                                       >  2:66154/1‑141 (MQ=255)

                    tttCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATCTTGCAGTCAAGTTCAATATCATACTGATCTGATCACCAATAACAATTACTAata                                                                                                                     <  1:643275/140‑1 (MQ=255)

                      tcgaaCGCACGTGTAACTTCCTGTTGGAATATTACTATTAAAGCTAATTCTCCCCATTGAATAACGATATCGAATAAGTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATc                                                                                                                   <  2:372214/138‑1 (MQ=255)

                              aCGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGACTAATTTAGACGTTGCAGTCAAGTGCACTATCATACTTATCTGATGACCACTAACACTTGTTAATATCCCCTTGAg                                                                                                           >  1:422358/1‑141 (MQ=255)

                                   tAATTTCTGGTTGGAATATTACTATTTAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAAtt                                                                                                      <  1:999377/141‑1 (MQ=255)

                                   tAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAAtt                                                                                                      <  2:704355/141‑1 (MQ=255)

                                    aaTTTCTGTTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTg                                                                                                     <  2:704016/141‑1 (MQ=255)

                                    aaTTTCTGGTTGGAATATTACTATTAAATCTAATACCCCCCATTGAATAACGATATCGAACAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTg                                                                                                     <  2:419962/141‑1 (MQ=255)

                                         cTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATGGGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCg                                                                                                >  1:819229/1‑141 (MQ=255)

                                          tGGTTGGAATATTACTATTAGAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGc                                                                                               >  1:601167/1‑141 (MQ=255)

                                          tGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGCCGAATACCAAGTACTAATATCCCTTTAAGTAATTGTATCGc                                                                                               >  1:183061/1‑141 (MQ=255)

                                          tGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTATTATCCCTTTAAATAATTGAATCgt                                                                                               >  1:873896/1‑140 (MQ=255)

                                          tGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTTTATCGc                                                                                               >  2:99081/1‑141 (MQ=255)

                                          tGGTTGGAATATTACGATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGc                                                                                               >  1:739946/1‑141 (MQ=255)

                                            gTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCtt                                                                                             <  2:571665/141‑1 (MQ=255)

                                               ggAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTat                                                                                          >  1:990656/1‑140 (MQ=255)

                                               ggAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAg                                                                                          >  1:855265/1‑141 (MQ=255)

                                                    atTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTccc                                                                                     <  1:387375/141‑1 (MQ=255)

                                                      tACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCtt                                                                                   >  2:563959/1‑141 (MQ=255)

                                                           tcaacgCTAATACCCCCCATTTAATAACGTTATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGa                                                                              <  1:37982/136‑1 (MQ=255)

                                                            tAAAGCTCATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTCAGTACGTGTTTCGCTTTAGTTCTCTTAAAGAc                                                                             <  1:731518/141‑1 (MQ=255)

                                                              aaGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCTCTTTAGTTCCCTTAAAGACCg                                                                           >  1:336697/1‑141 (MQ=255)

                                                              aaGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCg                                                                           >  1:939790/1‑141 (MQ=255)

                                                              aaGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCg                                                                           >  2:804884/1‑141 (MQ=255)

                                                              aaGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAAACCg                                                                           >  2:260923/1‑141 (MQ=255)

                                                              aaGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCACTTAAGTTCCCTTAAAGAcgg                                                                           >  1:178387/1‑139 (MQ=255)

                                                               aGCTTATACCCCCTATTGAATAACGATATAGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGt                                                                          <  1:144805/141‑1 (MQ=255)

                                                                gCTAATACCCCCCAGTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGtg                                                                         >  1:551770/1‑141 (MQ=255)

                                                                    aTACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGtgatga                                                                     >  1:44628/1‑141 (MQ=255)

                                                                    aTACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGAAGTAAACTGACTTAGCATACTTATCTGTGGATCAAGAACAATTACTAATATCCCTTTAAGAAATTGTATCGCTTTATTTCCCTTAAAGACCGtgatga                                                                     >  1:234209/1‑141 (MQ=255)

                                                                     tACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAACGACCGTGATgag                                                                    <  1:515999/141‑1 (MQ=255)

                                                                       ccccccATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCGATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGagaa                                                                  >  1:657709/1‑141 (MQ=255)

                                                                       ccccccATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGagaa                                                                  >  1:489394/1‑141 (MQ=255)

                                                                        cccccATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTTTATCGCTTTATTTCCCTTAAAAACCGGGATGagaaa                                                                 >  2:368964/1‑140 (MQ=255)

                                                                         ccccAATGAATAACGATATTGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGagaaga                                                                <  1:306800/141‑1 (MQ=255)

                                                                          cccATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGAt                                                               >  2:12141/1‑141 (MQ=255)

                                                                            cATTGAATAACGATATCGAATGGTTAAGATTCTGCAGTCAAGTTCAATATCATACTTATTTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATGATATCACTTTAGTTCCCTTAAAGTCTGTGACAAGAAGTTaa                                                             >  2:456390/1‑141 (MQ=255)

                                                                            cATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTACTATCCCTTTAATTAATTGTATCGTCTTAGTTACCTTAAAGACCGTGCTaataaaataa                                                             >  1:44250/1‑141 (MQ=255)

                                                                             aTTCAATAATGCTATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTTATGTCCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATaaa                                                            <  1:319109/141‑1 (MQ=255)

                                                                              ttGAATAACGATATCGAAGAATTTAGATGTTGCAGTCAAGATCAATATCATACTTAACTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATAGCTTTAGTTCCCTTAAAGACCGTGATGAGAGGATAAAg                                                           >  2:76630/1‑141 (MQ=255)

                                                                                gAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTa                                                         >  1:283874/1‑141 (MQ=255)

                                                                                gAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATAACATACTCATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAAACGATAAAGTa                                                         >  2:112662/1‑141 (MQ=255)

                                                                                gAATAACGATATCGAATAATGTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCCTAAAGTAATTGTATCGCTTTAATTCCCTTAAAGACCGTGATGAGAAGCTAAAGTa                                                         >  2:545594/1‑141 (MQ=255)

                                                                                  aTAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCCTACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGTTGGGAAGATAAAGTACa                                                       >  1:260534/1‑141 (MQ=255)

                                                                                       gATACCGAATAATTTAAATACTGCAGTCAAGTTCAATATCATACTTATCCTATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCa                                                  <  1:240966/141‑1 (MQ=255)

                                                                                         tatCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTCAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCaaa                                                >  2:683924/1‑141 (MQ=255)

                                                                                              aataatTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCACTAACAATTACTAATATTCCTTTAAGTAATTGAATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAAATAACGTACATACCAAAccaac                                           >  2:25137/1‑137 (MQ=255)

                                                                                               ataatTTAGATGTTGCAGTCCAGTTCAATATCATACTTATCTGACGACCAATAATAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCa                                          <  2:437665/141‑1 (MQ=255)

                                                                                               ataatTTAGATGTTGCAGTCAAGTTCATAATCATATTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCa                                          <  2:902199/141‑1 (MQ=255)

                                                                                               ataatTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATACCAATTACTAATATCACTTTAAGTAATTCTATCGCTTTAGTTCCCTTAAAAACCGTGATGAGAAGATAAAGTACATACAAAACTATCa                                          >  1:949291/1‑141 (MQ=255)

                                                                                               ataatTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGGCCGTGATGAGAAGATAAAGTACATACCAAACTATCa                                          <  1:688055/141‑1 (MQ=255)

                                                                                               ataatTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCa                                          <  1:789429/141‑1 (MQ=255)

                                                                                               ataatTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCa                                          <  1:810355/141‑1 (MQ=255)

                                                                                                taatTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAg                                         >  2:289817/1‑141 (MQ=255)

                                                                                                 aatTTAGATGTTGCAGTCAAGTTCAATATCATCCTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGt                                        >  1:240704/1‑141 (MQ=255)

                                                                                                     tAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAAt                                    <  2:553190/141‑1 (MQ=255)

                                                                                                       gATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTTCCTTAAAGACTGTGATGAGAAGTTAACGTACATTGCAAACTATCAGTAAATCa                                  >  2:594842/1‑141 (MQ=255)

                                                                                                       gATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATCGAGTACATACCAAACTATCAGTAAATCa                                  <  2:551770/141‑1 (MQ=255)

                                                                                                       gATGTTGCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCa                                  >  2:103250/1‑141 (MQ=255)

                                                                                                             gCAGTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGAGAAAGTACATACCAAACTATCAGTAAATCAAGGATa                            >  1:273204/1‑141 (MQ=255)

                                                                                                                gTCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTc                         >  1:964685/1‑141 (MQ=255)

                                                                                                                 tCAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCg                        >  1:675170/1‑141 (MQ=255)

                                                                                                                  cAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGt                       <  2:224258/141‑1 (MQ=255)

                                                                                                                  cAAGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGt                       <  2:515123/141‑1 (MQ=255)

                                                                                                                   aaGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTACGTAATTGTATCGCTTTAGTTCCATTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGtt                      <  1:557170/141‑1 (MQ=255)

                                                                                                                   aaGTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTACATTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGtt                      <  1:66154/141‑1 (MQ=255)

                                                                                                                     gTTCTATAACATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGCCAAGACAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTAc                    <  2:652212/141‑1 (MQ=255)

                                                                                                                     gTTCAATATCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTAc                    <  1:967437/141‑1 (MQ=255)

                                                                                                                           tatCATACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAAtttt              <  1:12141/141‑1 (MQ=255)

                                                                                                                               aTACTTATCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAAc          >  1:246129/1‑141 (MQ=255)

                                                                                                                                     aTCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAACGTACTg    >  1:903866/1‑141 (MQ=255)

                                                                                                                                     aTCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAACGTACTg    >  1:613185/1‑141 (MQ=255)

                                                                                                                                      tCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGCAGATAAAGTACATACCAAACTATACGTAAATCAAGGATACTCGTTACAATTTTTAACGTACtca   >  2:506991/1‑139 (MQ=255)

                                                                                                                                      tCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTTTCAGTAAATCAAGGATACTCGTTACAATTTTTACCGTGCTGa   >  1:324406/1‑141 (MQ=255)

                                                                                                                                      tCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAACGTACTGa   <  2:283874/141‑1 (MQ=255)

                                                                                                                                      tCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAACGTACTGa   >  1:673632/1‑141 (MQ=255)

                                                                                                                                      tCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAACGTACTGa   >  1:55587/1‑141 (MQ=255)

                                                                                                                                      tCTGATGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGAAAATCAAGGATACTCGTTACAATTTTTAACGTACTGa   >  1:673600/1‑141 (MQ=255)

                                                                                                                                       ctgatgACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTAAAATTTTTAACGTATTGAg  >  2:758567/1‑141 (MQ=255)

AAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGTGATGAGAAGATAAAGTACATACCAAACTATCAGTAAATCAAGGATACTCGTTACAATTTTTAACGTACTGAG  >  USA300TCH1516_ALE/2289187‑2289462

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