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
A3 F67 I1 R1	15	88.5	1847830	95.4%	1762829	135.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	2,279,705	G→A	A943V (GCA→GTA)	ebh_3 ←	Extracellular matrix‑binding protein ebh

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,279,705	0	G	A	99.1%	414.7 / NA	113	A943V (GCA→GTA)	ebh_3	Extracellular matrix‑binding protein ebh
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (51/61); minor base C (0/1); total (51/62)
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

Only 100 of 113 total aligned reads displayed.

TTGTGCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTGCTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCT  >  USA300TCH1516_ALE/2279568‑2279839

ttGTGCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                                     >  1:326579/1‑141 (MQ=255)

 tgtgCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtgt                                                                                                                                    >  1:633393/1‑141 (MQ=255)

  gtgCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtgtt                                                                                                                                   <  1:120507/141‑1 (MQ=255)

        ttattaGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCa                                                                                                                             >  3:51447/1‑141 (MQ=255)

           ttaGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCt                                                                                                                          <  2:464593/141‑1 (MQ=255)

            taGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTg                                                                                                                         >  1:545605/1‑141 (MQ=255)

            taGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTg                                                                                                                         <  1:483535/141‑1 (MQ=255)

              gTTGATTCTACTTCTGGTTTACTAGTTACGTCGTTATCCATTGTCGGACTG‑TTTGTTGCTGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTCTCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGtt                                                                                                                       <  2:295042/141‑1 (MQ=255)

                  aTTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCg                                                                                                                   <  2:363981/141‑1 (MQ=255)

                   ttCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGc                                                                                                                  <  3:32760/141‑1 (MQ=255)

                       aCTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCa                                                                                                              <  2:315315/141‑1 (MQ=255)

                        cTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCAc                                                                                                             <  2:555003/141‑1 (MQ=255)

                        cTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCAc                                                                                                             >  2:6200/1‑141 (MQ=255)

                        cTTCTGGTTTACTAGGTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCAc                                                                                                             >  3:135739/1‑141 (MQ=255)

                         ttCTGGTTTACTAGTTACATCGTTATCCATTGTCTGACTGATTTGTT‑AGGCGGTGACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACt                                                                                                            <  1:94330/141‑1 (MQ=255)

                         ttCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCAGCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACt                                                                                                            <  1:94187/141‑1 (MQ=255)

                          tCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACta                                                                                                           >  3:34399/1‑141 (MQ=255)

                          tCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACta                                                                                                           <  1:577716/141‑1 (MQ=255)

                           cTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACtat                                                                                                          >  1:257260/1‑141 (MQ=255)

                           cTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATGGGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACtat                                                                                                          <  1:628110/141‑1 (MQ=255)

                            tGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACtatt                                                                                                         >  1:216484/1‑141 (MQ=255)

                             ggTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACtatta                                                                                                        <  1:419014/141‑1 (MQ=255)

                               tttACTAGTTACATCGTTTTTTATTGTCGTACGG‑GGTGCAGCGGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTattatt                                                                                                      <  2:201612/141‑1 (MQ=255)

                               tttACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTattatt                                                                                                      <  1:307242/141‑1 (MQ=255)

                                ttACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTAttt                                                                                                     <  4:11161/141‑1 (MQ=255)

                                ttACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTAttt                                                                                                     <  2:375415/141‑1 (MQ=255)

                                  aCTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTgg                                                                                                   >  3:203877/1‑141 (MQ=255)

                                  aCTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTgg                                                                                                   <  1:393925/141‑1 (MQ=255)

                                  aCTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTgg                                                                                                   >  4:202284/1‑141 (MQ=255)

                                   cTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTCTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgt                                                                                                  <  3:236790/141‑1 (MQ=255)

                                    tAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgtg                                                                                                 <  1:613743/141‑1 (MQ=255)

                                     aGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgtgt                                                                                                >  1:13785/1‑141 (MQ=255)

                                      gTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgtt                                                                                               >  1:568432/1‑141 (MQ=255)

                                       ttACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgttg                                                                                              >  2:197859/1‑141 (MQ=255)

                                            tCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                                     >  3:275355/1‑97 (MQ=255)

                                            tCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                                     <  4:275355/97‑1 (MQ=255)

                                             cGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgag                                                                                        >  3:84589/1‑141 (MQ=255)

                                             cGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgag                                                                                        >  3:137193/1‑141 (MQ=255)

                                             cGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgag                                                                                        >  1:288057/1‑141 (MQ=255)

                                             cGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgag                                                                                        >  1:276168/1‑141 (MQ=255)

                                              gTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgaga                                                                                       >  2:633501/1‑141 (MQ=255)

                                               ttATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGaa                                                                                      >  1:551956/1‑141 (MQ=255)

                                                  tCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                                     >  2:15368/1‑91 (MQ=255)

                                                  tCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCGTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                                     <  1:15368/91‑1 (MQ=255)

                                                   ccATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGt                                                                                  <  1:209337/141‑1 (MQ=255)

                                                    cATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTc                                                                                 <  2:121133/141‑1 (MQ=255)

                                                    cATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTc                                                                                 >  2:476558/1‑141 (MQ=255)

                                                    cATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTc                                                                                 >  1:45278/1‑141 (MQ=255)

                                                    cATTGTCGGACTG‑TGTGTTGATGCATCTACACTTGAATTGTTATTTGCTTGCGGTTTATCATTTGCATTATCTGTTGCTGATGTTCCTGTTGTTTCGCCTGTTGCCGCGTCACTATTATTTGGTGTTGTGGGGGAAGCGTc                                                                                 <  2:31404/141‑1 (MQ=255)

                                                       tGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGc                                                                              <  1:582129/141‑1 (MQ=255)

                                                        gTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCt                                                                             <  1:104697/141‑1 (MQ=255)

                                                           ggACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCACCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTg                                                                          <  2:210926/141‑1 (MQ=255)

                                                               tg‑tttgttGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCAt                                                                      <  2:115207/141‑1 (MQ=255)

                                                                g‑tttgttGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCAtt                                                                     <  2:474047/141‑1 (MQ=255)

                                                                   ttgttgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAg                                                                   >  4:142556/1‑141 (MQ=255)

                                                                    tgttgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGc                                                                  <  4:203877/141‑1 (MQ=255)

                                                                    tgttgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGc                                                                  <  4:262306/141‑1 (MQ=255)

                                                                    tgttgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGc                                                                  <  2:21714/141‑1 (MQ=255)

                                                                    tgttgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGc                                                                  <  2:521698/141‑1 (MQ=255)

                                                                       tgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgt                                                               <  2:330095/141‑1 (MQ=255)

                                                                       tgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgt                                                               <  2:128547/141‑1 (MQ=255)

                                                                         aTGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgaga                                                                                       <  4:216895/115‑1 (MQ=255)

                                                                         aTGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgaga                                                                                       >  3:216895/1‑115 (MQ=255)

                                                                           gCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgtcgtc                                                           >  1:16753/1‑141 (MQ=255)

                                                                           gCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGAAGTTTCACCGGTTGCCTCATCACTATTATTTGGTTTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgtcgtc                                                           >  1:450202/1‑141 (MQ=255)

                                                                             aTCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGtctc                                                         <  4:51447/141‑1 (MQ=255)

                                                                               cTACACTAGAATTGTTATTAGCTTGCGGTTTATCCTTTGCATCCTCAGTTGATGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTAGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAg                                                       <  4:63832/141‑1 (MQ=255)

                                                                                tACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGa                                                      <  2:589067/141‑1 (MQ=255)

                                                                                tACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCACATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGa                                                      <  3:248800/141‑1 (MQ=255)

                                                                                 acacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgt                                                                                                  <  4:135057/96‑1 (MQ=255)

                                                                                 acacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgt                                                                                                  >  3:135057/1‑96 (MQ=255)

                                                                                 acacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgtt                                                                                               <  1:516868/99‑1 (MQ=255)

                                                                                 acacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgtt                                                                                               >  2:516868/1‑99 (MQ=255)

                                                                                 acacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGAt                                                     <  1:15666/141‑1 (MQ=255)

                                                                                  cacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGtct                                                          >  2:585244/1‑135 (MQ=255)

                                                                                  cacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGtct                                                          <  1:585244/135‑1 (MQ=255)

                                                                                  cacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATa                                                    >  1:616635/1‑141 (MQ=255)

                                                                                     tAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGt                                                 <  4:34399/141‑1 (MQ=255)

                                                                                      aGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGtt                                                <  3:218371/141‑1 (MQ=255)

                                                                                       gAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTg                                                                                                                         >  4:58087/1‑67 (MQ=255)

                                                                                       gAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTg                                                                                                                         <  3:58087/67‑1 (MQ=255)

                                                                                          ttGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGt                                            >  1:257683/1‑141 (MQ=255)

                                                                                                     ttGCGGTGTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTCTTGTCGAAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTAtt                                 <  2:632296/141‑1 (MQ=255)

                                                                                                      tGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGc                                                                  <  4:67018/107‑1 (MQ=255)

                                                                                                      tGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGc                                                                  >  3:67018/1‑107 (MQ=255)

                                                                                                         ggTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCCCCTGTTGCCGCGTCACTATTATTTGGTGTTGTCAGGGAAGCGGCCGCTTTGCCATTAGCTGTCGTTTCAGATACGTTACATTGTCCAGTATTTTCt                             <  2:633393/141‑1 (MQ=255)

                                                                                                         ggTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCt                             >  1:83726/1‑141 (MQ=255)

                                                                                                         ggTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTCTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCt                             <  1:476558/141‑1 (MQ=255)

                                                                                                             tATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGgtg                         >  1:392442/1‑141 (MQ=255)

                                                                                                              aTCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGgtgt                        <  2:623728/141‑1 (MQ=255)

                                                                                                              aTCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGgtgt                        >  1:82072/1‑141 (MQ=255)

                                                                                                                    tGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCAtt                  >  1:16559/1‑141 (MQ=255)

                                                                                                                      catcatCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAg                >  1:241486/1‑141 (MQ=255)

                                                                                                                         catcaGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCAt             >  1:244289/1‑141 (MQ=255)

                                                                                                                            caGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTg          <  3:191026/141‑1 (MQ=255)

                                                                                                                               ttGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAAt       <  2:311752/141‑1 (MQ=255)

                                                                                                                               ttGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAAt       <  2:311746/141‑1 (MQ=255)

                                                                                                                                 gCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAAttt     >  4:154659/1‑141 (MQ=255)

                                                                                                                                    gATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCt  >  2:361375/1‑141 (MQ=255)

                                                                                                                                    gATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCt  >  2:330298/1‑141 (MQ=255)

TTGTGCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTG‑TTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTGCTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCT  >  USA300TCH1516_ALE/2279568‑2279839

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

GATK/CNVnator alignment

N/A