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 F60 I0 R1	73	395.3	8837978	95.5%	8440268	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,279,705	G→A	100%	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	99.8%	1382.8 / ‑5.4	482	A943V (GCA→GTA)	ebh_3	Extracellular matrix‑binding protein ebh
Reads supporting (aligned to +/- strand): ref base G (0/2); major base A (228/243); minor base T (0/5); total (231/251)
Fisher's exact test for biased strand distribution p-value = 6.23e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

Only 100 of 482 total aligned reads displayed.

TTGTGCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTGCTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCTGTT  >  USA300TCH1516_ALE/2279568‑2279842

ttGTGCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                                        >  1:1260409/1‑141 (MQ=255)

ttGTGCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                                        <  1:1581363/141‑1 (MQ=255)

    gCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtgttgt                                                                                                                                    >  1:412002/1‑141 (MQ=255)

     ccGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTgttgtt                                                                                                                                   >  1:3165516/1‑141 (MQ=255)

     ccGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTCATGTTACTgttgtt                                                                                                                                   >  1:2478694/1‑141 (MQ=255)

              gTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTATATTTGTTATTTGCTTTCGTTTTATCATTTGCATTATCAGTTGCTGATGTTACTGTTGTTTCACCTGtt                                                                                                                          <  1:979491/141‑1 (MQ=255)

               ttGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                         <  2:3557428/141‑1 (MQ=255)

               ttGAGTCTGCTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                         <  1:2625895/141‑1 (MQ=255)

                 gATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGcc                                                                                                                       >  1:1637047/1‑141 (MQ=255)

                 gATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGcc                                                                                                                       >  1:1791709/1‑141 (MQ=255)

                 gATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTAATGTTGTTTCTCCTATTGcc                                                                                                                       >  2:2038954/1‑141 (MQ=255)

                 gATTCTACTGTTGGTTGACTCGTGACATCGTTATACATTGTCGGACTGTTTGTTGATGCATTTACACTTGAATTGTTATTAGGTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGGTACTGTTGTTTCACCTGTTGcc                                                                                                                       <  2:1063884/141‑1 (MQ=255)

                        tttgtgttttAGTAGTTACTTTGTTATTCTTTGTCGGTGTGTTTGGTGATGTATCTACACTTGTATTGTTATTAGCTTGCGGTTTATCATTTGTATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCAc                                                                                                                <  2:2312416/134‑1 (MQ=255)

                        cTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATcgc                                                                                                                >  1:3277161/1‑139 (MQ=255)

                        cTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCAc                                                                                                                >  1:3669937/1‑141 (MQ=255)

                           cTGGTGTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACtat                                                                                                             <  1:3822296/141‑1 (MQ=255)

                            tGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACtatt                                                                                                            >  1:548758/1‑141 (MQ=255)

                                ttACTAGTTGCATAGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTAttt                                                                                                        <  2:1694690/141‑1 (MQ=255)

                                ttACGAGTTACAGTGTGTTCGAGTGTCGGACTGTTTGTTGTTGCATCTATACTAGAATTTTTATTAGCTTGCGGTTTGTCCTTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTAttt                                                                                                        <  2:2515412/141‑1 (MQ=255)

                                  aCTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTgg                                                                                                      >  1:2424770/1‑141 (MQ=255)

                                     tgTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTTCACTATAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgtgt                                                                                                   <  2:2763212/140‑1 (MQ=255)

                                      gTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGATTGCGGGTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgtt                                                                                                  <  2:2675427/141‑1 (MQ=255)

                                        tACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgttgt                                                                                                >  2:1525679/1‑141 (MQ=255)

                                            tCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCTTAACTGTGATTTGGTGTTGTCGga                                                                                            >  1:592635/1‑141 (MQ=255)

                                            tCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGga                                                                                            >  1:130833/1‑141 (MQ=255)

                                               ttATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCCCTATTATATGTTGTTGTCGGAGaa                                                                                         >  1:3903778/1‑141 (MQ=255)

                                               ttATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGaa                                                                                         >  2:3037300/1‑141 (MQ=255)

                                               ttATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGaa                                                                                         >  2:372024/1‑141 (MQ=255)

                                                tATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCTTTAGTCTTAGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAg                                                                                        >  1:1026338/1‑141 (MQ=255)

                                                 tttcATTGTCTGACTGTTTTTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGc                                                                                       <  2:1225668/138‑1 (MQ=255)

                                                 aTCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGc                                                                                       <  1:2876742/141‑1 (MQ=255)

                                                 aTCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGc                                                                                       <  1:2379887/141‑1 (MQ=255)

                                                   ccATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGt                                                                                     <  1:270593/141‑1 (MQ=255)

                                                   ccATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGt                                                                                     <  1:623560/141‑1 (MQ=255)

                                                   ccATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGt                                                                                     <  1:400992/141‑1 (MQ=255)

                                                    cATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTc                                                                                    >  2:858974/1‑141 (MQ=255)

                                                     aTTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGCAGCGTCt                                                                                   >  2:3221063/1‑141 (MQ=255)

                                                     aTTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCt                                                                                   <  1:4183817/141‑1 (MQ=255)

                                                     aTTGTCGGACTGTTGGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCt                                                                                   <  2:3421316/141‑1 (MQ=255)

                                                      ttGTCGGACGGTTTGTTGATCCATCTACATTATAATTATTCTTAGGTTGCGGTTTATCCCTTGCATCAGCAGTTGCTGATGTTTCTGTTGTTTCACCTGTTGCCGCATCACAAGTATGTTGTGTTGTCGGAGAAGCGTCTg                                                                                  <  2:78940/141‑1 (MQ=255)

                                                        gTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCt                                                                                <  1:3319339/141‑1 (MQ=255)

                                                         tCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCtt                                                                               >  1:2735447/1‑141 (MQ=255)

                                                         gcGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCtt                                                                               <  1:2969363/140‑1 (MQ=255)

                                                          cGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTTTCGGAGAAGCGTCTGCttt                                                                              >  2:3658541/1‑141 (MQ=255)

                                                             gcTGTTTGTTGATGCATCTGCACTGGAATGGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGGTGATGTTCCTGTTGTTTGACCTGTTGCCGCGTGACTATTATTTGGTGTTGTCGGCGAAGCGTCTGGCTTGcc                                                                           >  1:1353694/2‑141 (MQ=255)

                                                              cTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCa                                                                          >  1:3542607/1‑141 (MQ=255)

                                                                 tttgttGATGCATCTACTCTAGAATTTTTATTCGCTTGCGTTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTa                                                                       <  2:2392644/141‑1 (MQ=255)

                                                                 ttggttgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCGTCGGTTTGTGATGTTACTGTTGTTTGACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGCAGCAGCGTCTGCTTTGCCATTa                                                                       >  2:3980516/4‑141 (MQ=255)

                                                                        aTGCATCTACACTAGAATTGTTCTTAGTTTGTTGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgtcg                                                                <  2:2149244/141‑1 (MQ=255)

                                                                        aTGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGCTGTTACTGTTGTTTCACCTGTTGCCGCATCACCATGATTTGGTGTTGTCGGAGAACCGTCTGCTTTGCCATTATCTttct                                                                >  2:434000/1‑140 (MQ=255)

                                                                         tGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgtcgt                                                               >  1:476505/1‑141 (MQ=255)

                                                                             tCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCATTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGTAGAAGCCTCTGCTTTGCCATTAGCTGTCGTCTCa                                                           >  2:1156168/1‑141 (MQ=255)

                                                                             tCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGTAGAAGCATCTGCTTTTCCATTAGCTGTCGtctcc                                                           >  2:3294665/1‑140 (MQ=255)

                                                                             tCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCa                                                           >  1:69823/1‑141 (MQ=255)

                                                                              cTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAg                                                          <  2:4145751/141‑1 (MQ=255)

                                                                              cTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATCTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAg                                                          >  1:1061659/1‑141 (MQ=255)

                                                                                 cacTCGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATa                                                       <  1:4060068/141‑1 (MQ=255)

                                                                                     agtaTTGGTATTAGTTTGCGGTTTATCATTTGTGTCATCAGTTGCTGATGTTATTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGTTTTTCCATTTGCTGTCGTCTCAGATACGtt                                                   <  2:546405/138‑1 (MQ=255)

                                                                                     aGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGtt                                                   <  2:3165516/141‑1 (MQ=255)

                                                                                       taTTGTTGTTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTTTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAg                                                 <  2:2444298/140‑1 (MQ=255)

                                                                                       aaTTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAg                                                 >  1:3379814/1‑141 (MQ=255)

                                                                                        aTTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCACATCACTATTATTTGGTGTTGTCGGAGCAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGACACGTTAgg                                                >  2:515952/1‑141 (MQ=255)

                                                                                         tgggtattaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGt                                               <  2:2224842/137‑1 (MQ=255)

                                                                                            ttattaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTATCTGTCGTTTCAGATACGTTAGGCTGt                                            >  2:1905128/1‑141 (MQ=255)

                                                                                            ttattaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGt                                            >  1:1405610/1‑141 (MQ=255)

                                                                                            ttattaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTAGTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGt                                            >  1:2088514/1‑141 (MQ=255)

                                                                                                taGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAg                                        <  1:4283268/141‑1 (MQ=255)

                                                                                                taGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAg                                        <  1:3600042/141‑1 (MQ=255)

                                                                                                  gCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATAACGATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTATGAGATACTGAAGGTTGTCAAGTa                                      >  2:1586126/1‑141 (MQ=255)

                                                                                                     tGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTAttt                                   >  1:2358187/1‑141 (MQ=255)

                                                                                                     tGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTAttt                                   >  1:1704427/1‑141 (MQ=255)

                                                                                                     tGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATGTTTTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATAAGCTAGGTTGTCCAGTAttt                                   >  2:2906893/1‑141 (MQ=255)

                                                                                                       cGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTc                                 >  2:2098988/1‑141 (MQ=255)

                                                                                                        ggTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCt                                <  2:3939174/141‑1 (MQ=255)

                                                                                                        ggTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTACTATTTGCTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCATATCAGTTCTTTTTTCCAGTCTTctct                                >  2:645891/1‑141 (MQ=255)

                                                                                                         gTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTg                               <  1:2532201/141‑1 (MQ=255)

                                                                                                         gTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTg                               <  1:1839090/141‑1 (MQ=255)

                                                                                                          ttttgcttttGGATCATCAGTTGTTTATGTTAGTGTTTTTTCGCCTGTGGCTGCATCACTATTATGTGGTGTTGTCGGTGATGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTATGTTGTCCAGTATTTTCTgg                              <  2:73616/134‑1 (MQ=255)

                                                                                                           ttATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGgt                             <  1:2792334/141‑1 (MQ=255)

                                                                                                           ttATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGgt                             >  1:3773889/1‑141 (MQ=255)

                                                                                                             aTCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGgtgt                           <  1:1525679/141‑1 (MQ=255)

                                                                                                             aTCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCAGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTGCAGTATTTTCTGgtgt                           >  1:346218/1‑141 (MQ=255)

                                                                                                                 tttGCTTCATCAGTTGCTGATGTTGCTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCTGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCa                       <  2:2969738/141‑1 (MQ=255)

                                                                                                                 tttGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCa                       <  2:1633892/141‑1 (MQ=255)

                                                                                                                        catcaGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCAt                >  2:148681/1‑141 (MQ=255)

                                                                                                                         atcaGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATCCGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCAtt               >  1:1953704/1‑141 (MQ=255)

                                                                                                                             gTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGaa           <  2:1260409/141‑1 (MQ=255)

                                                                                                                             gTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGaa           <  1:3037300/141‑1 (MQ=255)

                                                                                                                              ttGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAAt          <  1:1125861/141‑1 (MQ=255)

                                                                                                                               tgttGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAAtt         <  2:383682/138‑1 (MQ=255)

                                                                                                                                  tGATGTTACTGTTGTTTCCCCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGc      <  1:728174/141‑1 (MQ=255)

                                                                                                                                  tGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGc      <  1:514761/141‑1 (MQ=255)

                                                                                                                                  tGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGc      <  1:608441/141‑1 (MQ=255)

                                                                                                                                   gATGTTTCTGCTGTTTCACCTGTTGCCGCTTCACTATTATTTGCTGTTGTCGGAGAAGCGTCTGCTTTGCCATTCGCTGTCGTCTTAGATACGTTAGTTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCt     <  2:2013017/141‑1 (MQ=255)

                                                                                                                                   gATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGGTTCTGCTTTGCAATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCt     <  2:46291/141‑1 (MQ=255)

                                                                                                                                   gATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCt     <  2:4047135/141‑1 (MQ=255)

                                                                                                                                   gATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCt     <  1:2214005/141‑1 (MQ=255)

                                                                                                                                   gATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATGTGGTGTTGTCGGAGAAGCGTCTGCTGTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCt     <  2:3380483/141‑1 (MQ=255)

                                                                                                                                    aTGTTTTTGTTTTTTGGCGTGTTGGCGATTCACTATTATTTGGGGTTGTCGGAGAAGGGTCTGCTTTGCCATTAGCTGTTTTCTCAGATACGTTGGGTTGTCCTGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCTg    <  2:1764934/141‑1 (MQ=255)

                                                                                                                                    aTGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCTg    <  1:851963/141‑1 (MQ=255)

TTGTGCCGTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTGCTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAATTTGCTGTT  >  USA300TCH1516_ALE/2279568‑2279842

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