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 F178 I1 R1	28	89.4	2015306	95.8%	1930663	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	607,884	G→A	R209* (CGA→TGA)	dck ←	Deoxyadenosine/deoxycytidine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	607,884	0	G	A	96.7%	252.2 / ‑4.9	90	R209* (CGA→TGA)	dck	Deoxyadenosine/deoxycytidine kinase
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (54/33); minor base C (1/2); total (55/35)
Fisher's exact test for biased strand distribution p-value = 5.58e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATATGTGAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCGAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATAGCGTTTAAATAGCTTTTTCCA  >  USA300TCH1516_ALE/607748‑608019

atatGTGAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTGGCTATGTTTGAATAATTCAAGc                                                                                                                                      >  2:54753/1‑140 (MQ=255)

atatGTGAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGc                                                                                                                                      >  1:753291/1‑140 (MQ=255)

atatGTGAATTAATGTATTAGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGAAATGTTTGAATAATTCAAGc                                                                                                                                      >  1:533647/1‑140 (MQ=255)

    tggAATTAATTTATTTGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAAtt                                                                                                                                  <  2:23631/138‑1 (MQ=255)

    gtgAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAAtt                                                                                                                                  >  1:145023/1‑140 (MQ=255)

    gtgAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAAtt                                                                                                                                  >  2:312769/1‑140 (MQ=255)

    gtgAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAAtt                                                                                                                                  >  2:312847/1‑140 (MQ=255)

     tgAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCGTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAACAAttt                                                                                                                                 >  2:455447/1‑140 (MQ=255)

     tgAATTAATGTATTCGATAAAATTGATAAAATAATAGATAATATCTATGGAATATACATTGAATAGAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTGTGAATAATTCAAGCAtttt                                                                                                                                 <  2:197745/140‑1 (MQ=255)

            aTGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTAt                                                                                                                          >  1:161440/1‑140 (MQ=255)

              gTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCa                                                                                                                        >  1:273500/1‑140 (MQ=255)

              gTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTAGATATGTTTGAATCATTCCAGCAATTTTGTTTTTCa                                                                                                                        >  1:451465/1‑140 (MQ=255)

              gTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTAGGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTAtaa                                                                                                                        >  2:532207/1‑138 (MQ=255)

                aTTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATa                                                                                                                      >  1:5059/1‑140 (MQ=255)

                aTTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTATTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCTTa                                                                                                                      >  2:682921/1‑140 (MQ=255)

                aTTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGAATTATTGAGTTTATCTACTTGGCGATAAGTTTAAATACTTCAAGCAATGTTGTTGATtata                                                                                                                      >  1:476634/1‑140 (MQ=255)

                  tCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAgg                                                                                                                    <  1:69793/140‑1 (MQ=255)

                     aTAGAATTGATAAAGTAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGAtt                                                                                                                 >  1:656449/1‑140 (MQ=255)

                     aTAGAATTGATAAAATAATCGATAATATTTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGAtt                                                                                                                 <  1:383681/140‑1 (MQ=255)

                     aTAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGAtt                                                                                                                 <  1:71622/140‑1 (MQ=255)

                       aGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTa                                                                                                               <  1:979094/140‑1 (MQ=255)

                        gAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTaa                                                                                                              <  2:297379/140‑1 (MQ=255)

                        gAATTGATAAAATAATAGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTaa                                                                                                              <  2:498258/140‑1 (MQ=255)

                          aTTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCCTAGGATTTAAAg                                                                                                            >  1:818526/1‑140 (MQ=255)

                           ttGATAAAATAATCGATAATATTTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGa                                                                                                           <  1:512085/140‑1 (MQ=255)

                           ttGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGa                                                                                                           >  1:328441/1‑140 (MQ=255)

                            tGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGAt                                                                                                          >  2:950977/1‑140 (MQ=255)

                              atatAATAATCAATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTc                                                                                                        <  1:83066/140‑1 (MQ=255)

                              aaaaaaTAATCGATAATATCTATTGAATATACATTGACTATAACCATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATGATTCAAGCAATTTTGTTTATCATAGGATTTATACATTc                                                                                                        <  2:466616/138‑1 (MQ=255)

                              aTAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTc                                                                                                        <  1:778306/140‑1 (MQ=255)

                              aTAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTc                                                                                                        <  1:393653/140‑1 (MQ=255)

                                aaaaTAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGGATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCgg                                                                                                      <  2:87404/140‑1 (MQ=255)

                                 aaaTAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTTTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCggg                                                                                                     >  2:536357/1‑140 (MQ=255)

                                   ataatCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGt                                                                                                   <  1:543235/140‑1 (MQ=255)

                                      atCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGGCTTTAGTCTTTTATCGTGTATCTACACGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCt                                                                                                >  1:26782/1‑140 (MQ=255)

                                       tCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATTTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATTTTTGAATAATTCAAGCAATTTTGTTTATATTTGGATTTAAAGATTCTGGGGCCtg                                                                                               >  2:810903/1‑139 (MQ=255)

                                       tCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTACAACAACCCAAGCAATTTTGTTTCTCATAGGTTTTAAAAATACGGGGTCCtt                                                                                               >  1:473625/1‑140 (MQ=255)

                                       tCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGACCGATTATGGCAAGCAATTTCGTTTATCATAGGCTTTAAAGATTCGGGGTCCtt                                                                                               >  1:473663/1‑140 (MQ=255)

                                              tatCTATGGAATATACATTGAATATAAACATATTCGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGata                                                                                        <  2:908324/140‑1 (MQ=255)

                                              tatCTATGGAATATACATTGAATATAAACATATACGCTATGTTTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGata                                                                                        <  2:229956/140‑1 (MQ=255)

                                                   aTGGAATATACATTGAATATAAACATATACGCTATGTCGTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAATGAATCCAGGTTGTTTTTGATAACata                                                                                   >  1:19210/1‑140 (MQ=255)

                                                         tattCATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCAtt                                                                             <  2:685106/140‑1 (MQ=255)

                                                            aCATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTTACTAGGGATATCATATTCATTAat                                                                          <  1:487297/140‑1 (MQ=255)

                                                            aCATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTCTGGATATCATATTCATTAat                                                                          >  2:993201/1‑140 (MQ=255)

                                                             cATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTAGCTACTTGTCGGTATATTTGAATAATTCAAGCAATTTTGATTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAata                                                                         >  2:774439/1‑140 (MQ=255)

                                                               ttGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTAACATAGGATTTCAAGATTCGGGGTCCTTATAGATATCATATTCATTAATAtt                                                                       >  2:63632/1‑140 (MQ=255)

                                                                  aaTTTAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGAt                                                                    <  2:793325/140‑1 (MQ=255)

                                                                    tataAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAGAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATAc                                                                  >  1:654338/1‑140 (MQ=255)

                                                                    tataAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATAc                                                                  >  1:423068/1‑140 (MQ=255)

                                                                     ataAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACg                                                                 >  1:822718/1‑140 (MQ=255)

                                                                     ataAACATATACGCTATGTCTTTAGTCGTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGATCCTTATGGATATCATATTCATTAATATTTATACg                                                                 >  2:307599/1‑140 (MQ=255)

                                                                      taAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGt                                                                >  2:26191/1‑140 (MQ=255)

                                                                      taAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGt                                                                <  1:333092/140‑1 (MQ=255)

                                                                          cATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGAGGTCGTTATGGATATCATATTCATTAATTTTGTAACGTACaa                                                            >  2:819305/1‑140 (MQ=255)

                                                                          cATATACGCTATGTCTTTAGCCTTTTATCGTGTATCCACATGTCGATATGATTGAATAATTCAAGAAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACaa                                                            >  1:397805/1‑140 (MQ=255)

                                                                            tataCGTTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGACACCAGATTCATTAATATTGATACGTACAACt                                                          <  1:995223/140‑1 (MQ=255)

                                                                            tataCGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACt                                                          >  1:158928/1‑140 (MQ=255)

                                                                                cGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGAc                                                      <  2:221567/140‑1 (MQ=255)

                                                                                 gctttttCTTTAGTCTTTTATCGTTTAGCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACa                                                     <  1:487780/134‑1 (MQ=255)

                                                                                 gCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACa                                                     >  2:7024/1‑140 (MQ=255)

                                                                                  cTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAATGATTCGGGAACCTTATGGATATCCTATTCATTAATATTTCTTCGTactactaaacac                                                    >  2:946177/1‑134 (MQ=255)

                                                                                     tGTCTTTAGTCTTTTATCTTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCa                                                 <  2:827027/140‑1 (MQ=255)

                                                                                      gTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCAt                                                <  2:648386/140‑1 (MQ=255)

                                                                                      gTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCAt                                                <  2:273500/140‑1 (MQ=255)

                                                                                       tCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTAAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATTCGTACAACTTGACATGCAtt                                               >  1:411052/1‑140 (MQ=255)

                                                                                       tCTTTAGTCCTTTAGCGTTTATCTACTGGTCGAGGTGTTATAATAATTCATGCAGTTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGCACATGCAtt                                               >  2:738511/1‑140 (MQ=255)

                                                                                        cTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATATGTATAAATAGACATGCATTa                                              >  1:846256/1‑140 (MQ=255)

                                                                                        cTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTa                                              >  1:143490/1‑140 (MQ=255)

                                                                                        cTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTa                                              >  1:792715/1‑140 (MQ=255)

                                                                                        cTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTa                                              >  1:383303/1‑140 (MQ=255)

                                                                                         tttAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTATTATTGATACGTACAACTGGACATGCATTaa                                             >  1:734002/1‑140 (MQ=255)

                                                                                         tttAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTaa                                             >  2:975167/1‑140 (MQ=255)

                                                                                         tttAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTGTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTaa                                             >  1:945020/1‑140 (MQ=255)

                                                                                          ttAGTCTTTTATCGTGTATCCACTAATCGGAAGGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTACAGATTCGCGGTCCTTATGGATATCATATTCATTAATATTAATACATACAACTGGACATGCATTaaa                                            >  1:485996/1‑140 (MQ=255)

                                                                                           tAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAGTTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATTGATATCATGTTCATTAATATTGATACGTACTACGCGACATGAAtttcag                                           >  2:337158/1‑136 (MQ=255)

                                                                                           tAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAg                                           <  2:476634/140‑1 (MQ=255)

                                                                                           tAGTCTTTTAGCGTGTATCTACTTGGCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAg                                           <  2:164767/140‑1 (MQ=255)

                                                                                              tCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTa                                        >  1:933985/1‑140 (MQ=255)

                                                                                               cTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATGAATATTGATACGTACAACTGGACCTGCATTAAAGCGAt                                       >  2:499242/1‑140 (MQ=255)

                                                                                                 tttATCGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTa                                     >  1:301601/1‑140 (MQ=255)

                                                                                                 tttACCGTGTATATACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATCTTGATACGTACAACTGGACATAGATTAAAGCTATTa                                     >  1:708486/1‑140 (MQ=255)

                                                                                                      cGTGTATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTCTTAATCCa                                >  2:498206/1‑140 (MQ=255)

                                                                                                         gtATCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATc                             >  2:943558/1‑140 (MQ=255)

                                                                                                           ttCTACTTGTCGATATGTTTGAATAATTTCAGACATTTTGTTTCTCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAAGATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGt                           <  1:521494/139‑1 (MQ=255)

                                                                                                            tCTACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTc                          <  1:316673/140‑1 (MQ=255)

                                                                                                              tACTTGTCGATATGTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCAt                        <  2:318079/140‑1 (MQ=255)

                                                                                                                           gTTTGAATAATTTAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATAGCGTTTAAATAg           <  1:134519/140‑1 (MQ=255)

                                                                                                                           gTTTGAATAATTCCAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCTAATCGTCTTAGCGTTTAAATAg           <  2:812775/140‑1 (MQ=255)

                                                                                                                           gTTTGAATAATTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAGTCGTCATAGCGTTTAAATAg           <  1:630006/140‑1 (MQ=255)

                                                                                                                                    atTCAAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATAGCGTTTAAATAGCGTTTTCCa  >  2:433384/1‑140 (MQ=255)

ATATGTGAATTAATGTATTCGATAGAATTGATAAAATAATCGATAATATCTATGGAATATACATTGAATATAAACATATACGCTATGTCTTTAGTCTTTTATCGTGTATCTACTTGTCGATATGTTTGAATAATTCGAGCAATTTTGTTTATCATAGGATTTAAAGATTCGGGGTCCTTATGGATATCATATTCATTAATATTGATACGTACAACTGGACATGCATTAAAGCTATTAATCCAATCGTCATAGCGTTTAAATAGCTTTTTCCA  >  USA300TCH1516_ALE/607748‑608019

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