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 F181 I0 R1	65	126.1	6126155	96.5%	5911739	99.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	3,459,293:1	(G)_5→6	100%	coding (955/1482 nt)	gspE →	general secretory pathway component, cryptic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,459,288	1	.	G	94.3%	418.7 / 18.2	123	coding (950/1482 nt)	gspE	general secretory pathway component, cryptic
Reads supporting (aligned to +/- strand): ref base . (4/3); new base G (55/60); total (59/64)
Fisher's exact test for biased strand distribution p-value = 7.11e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

Only 100 of 130 total aligned reads displayed.

AAGGCATTGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑GGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAG  >  NC_000913/3459192‑3459386

aaGGCATTGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑ggg                                                                                                 <  1:2096450/100‑1 (MQ=255)

 tggCATTGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑gggg                                                                                                >  2:3041645/2‑100 (MQ=255)

 aGGCATTGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑gggg                                                                                                <  1:2189190/100‑1 (MQ=255)

   gCATTGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑gggggg                                                                                              >  1:202456/1‑99 (MQ=255)

    cATTGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑gggggg                                                                                              >  1:925082/1‑98 (MQ=255)

      ttGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑GGGGGgaaa                                                                                           <  2:438060/100‑2 (MQ=255)

       tGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑GGGGGgaaat                                                                                          <  1:1034360/100‑3 (MQ=255)

         ggCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTc                                                                                         >  1:358100/1‑100 (MQ=255)

           cAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑GGGGGAAATTCGTg                                                                                      <  2:583498/100‑1 (MQ=255)

            aaaCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGt                                                                                       >  1:2356471/1‑99 (MQ=255)

            aaaCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTg                                                                                      <  2:2371251/100‑1 (MQ=255)

             aaCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGa                                                                                     <  1:1732802/100‑1 (MQ=255)

             aaCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGa                                                                                     >  1:1335724/1‑100 (MQ=255)

             aaCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGa                                                                                     <  1:784868/100‑1 (MQ=255)

              aCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGAt                                                                                    <  2:2186426/100‑1 (MQ=255)

              aCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGAt                                                                                    <  2:1793856/100‑1 (MQ=255)

              aCGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGAt                                                                                    <  2:1731188/100‑1 (MQ=255)

                gCAGGTGGATACCCGTGTGGGTCTGGCTTTCGCCCGCGGCGTGCGCGCCGTACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGt                                                                                       <  1:1276916/95‑1 (MQ=255)

                gCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATAc                                                                                  >  1:2019465/1‑100 (MQ=255)

                gCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATAc                                                                                  <  2:717409/100‑1 (MQ=255)

                 cAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACa                                                                                 >  1:2132432/1‑100 (MQ=255)

                    gTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGaa                                                                              <  1:2405968/100‑1 (MQ=255)

                     tGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGaaa                                                                             <  1:1523790/100‑1 (MQ=255)

                     tGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCAGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGaaa                                                                             >  2:147445/1‑100 (MQ=255)

                       aaTACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAAcc                                                                           >  2:1169887/1‑100 (MQ=255)

                       aaTACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAAcc                                                                           >  2:2911261/1‑100 (MQ=255)

                       aaTACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAAcc                                                                           >  1:106150/1‑100 (MQ=255)

                           cccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCgcgc                                                                       >  1:1797046/1‑100 (MQ=255)

                           cccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCgcgc                                                                       >  2:2500737/1‑100 (MQ=255)

                           cccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCgcgc                                                                       >  2:1625927/1‑100 (MQ=255)

                           cccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTGCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCgcgc                                                                       <  1:909668/100‑1 (MQ=255)

                            ccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCa                                                                      <  1:1573975/100‑1 (MQ=255)

                            ccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCa                                                                      <  2:1926842/100‑1 (MQ=255)

                            ccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCa                                                                      <  2:201034/100‑1 (MQ=255)

                            ccGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATCCGTGATACAGAAACCGCGCa                                                                      <  1:1871211/100‑1 (MQ=255)

                             cGTGTGGATATTTCTTTCGCTCGCGGCCTGCGCGCCATACGTCTACAGGACCCGGATGTCCTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCa                                                                      <  1:2186814/99‑1 (MQ=255)

                             cGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAg                                                                     >  1:2699371/1‑100 (MQ=255)

                             cGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAg                                                                     <  1:2233025/100‑1 (MQ=255)

                                  ggATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAAGCGCGCAGATTGc                                                                <  2:2004879/100‑1 (MQ=255)

                                  ggATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGc                                                                >  2:1610918/1‑100 (MQ=255)

                                     tatGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAACTTCGTGATACAGAAACCGCGCAGATTCCgg                                                              >  1:2727829/1‑99 (MQ=255)

                                     tatGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGt                                                             <  2:2025347/100‑1 (MQ=255)

                                     tatGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGt                                                             <  1:2197430/100‑1 (MQ=255)

                                       tGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTc                                                           >  2:1661828/1‑100 (MQ=255)

                                       tGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTc                                                           >  1:576594/1‑100 (MQ=255)

                                        gTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCa                                                          >  2:335730/1‑100 (MQ=255)

                                         tCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAg                                                         <  1:2720843/100‑1 (MQ=255)

                                         tCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAg                                                         <  1:44025/100‑1 (MQ=255)

                                          cTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAgg                                                        <  2:1915496/100‑1 (MQ=255)

                                          cTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAgg                                                        <  1:742564/100‑1 (MQ=255)

                                          cTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAACTCGTGATACAGAACCCGCGCAGATTGCGGTTCAg                                                         >  1:439289/1‑99 (MQ=255)

                                           tttCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGc                                                       >  1:2125603/1‑100 (MQ=255)

                                            ttCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGcc                                                      >  2:2557741/1‑100 (MQ=255)

                                             tcgctcgcGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCCTGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCt                                                     >  1:2318882/1‑100 (MQ=255)

                                               gctcgcGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCg                                                   <  2:652837/100‑1 (MQ=255)

                                                ctcgcGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGc                                                  >  2:2082658/1‑100 (MQ=255)

                                                ctcgcGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGc                                                  <  2:1498632/100‑1 (MQ=255)

                                                  cgcgGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTc                                                <  1:2399181/100‑1 (MQ=255)

                                                     ggCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCAcc                                             <  1:2189246/100‑1 (MQ=255)

                                                       ccTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCgg                                           >  2:2851315/1‑100 (MQ=255)

                                                        cTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGc                                          >  1:1446048/1‑100 (MQ=255)

                                                        cTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGc                                          <  1:994335/100‑1 (MQ=255)

                                                          gcgcgcCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑GGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCAt                                       >  1:2857719/1‑100 (MQ=255)

                                                             cgcCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCt                                     <  1:400258/100‑1 (MQ=255)

                                                             cgcCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCt                                     >  1:2250670/1‑100 (MQ=255)

                                                                cATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGt                                  <  2:925087/100‑1 (MQ=255)

                                                                cATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGt                                  <  1:2240348/100‑1 (MQ=255)

                                                                  tACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTAc                                >  2:2220173/1‑100 (MQ=255)

                                                                  tACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTAc                                >  2:2571345/1‑100 (MQ=255)

                                                                  tACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTAc                                <  2:657465/100‑1 (MQ=255)

                                                                  tACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTAc                                <  1:2972330/100‑1 (MQ=255)

                                                                    cTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTActc                              >  2:2247164/1‑100 (MQ=255)

                                                                     ttCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTActct                             <  1:1553222/100‑1 (MQ=255)

                                                                     ttCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTActct                             <  2:1098536/100‑1 (MQ=255)

                                                                     ttCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTActct                             >  1:59274/1‑100 (MQ=255)

                                                                      tCGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACtctc                            <  1:2851298/100‑1 (MQ=255)

                                                                       cGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCa                           <  1:908716/100‑1 (MQ=255)

                                                                       cGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCa                           <  2:2459176/100‑1 (MQ=255)

                                                                       cGCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCa                           <  1:2488899/100‑1 (MQ=255)

                                                                        gCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCaa                          >  2:2815869/1‑100 (MQ=255)

                                                                        gCCAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCaa                          >  1:2451258/1‑100 (MQ=255)

                                                                         cgatctcccGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAac                         <  1:375588/94‑1 (MQ=255)

                                                                         ccAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAac                         <  2:534141/100‑1 (MQ=255)

                                                                         ccAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAac                         <  1:2320471/100‑1 (MQ=255)

                                                                         ccAGGACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAac                         <  2:1824049/100‑1 (MQ=255)

                                                                           aGGGCCCGGAGGTCGTCATGGTCGGGGGAAATTCGTGTTACACACACCGCGCAGATTGCGGTTCAGGCCTCGCTCACTGGCCATCTGGTACTGTCagc                         <  1:202699/98‑3 (MQ=255)

                                                                             gACCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTc                     >  2:549486/1‑100 (MQ=255)

                                                                              aCCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTcc                    >  2:1884265/1‑100 (MQ=255)

                                                                              aCCCGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTcc                    <  2:1446054/100‑1 (MQ=255)

                                                                               cccGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAacagatcg                   >  2:375592/1‑95 (MQ=255)

                                                                               cccGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCca                   >  2:2356492/1‑100 (MQ=255)

                                                                               cccGGATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCca                   >  2:916573/1‑100 (MQ=255)

                                                                                  ggATGTCGTCATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCacac                <  2:806958/100‑1 (MQ=255)

                                                                                      gtcgtcATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAAc            >  1:477781/1‑100 (MQ=255)

                                                                                        cgtcATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAg          <  1:1911559/100‑1 (MQ=255)

                                                                                         ntcATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACa           >  1:1476698/2‑98 (MQ=255)

                                                                                         gtcATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGt         >  1:1799823/1‑100 (MQ=255)

                                                                                          tcATGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTg        <  2:1821608/100‑1 (MQ=255)

                                                                                            aTGGTGGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCa      <  2:2549028/100‑1 (MQ=255)

                                                                                               tt‑ggCGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAg  <  1:2758040/99‑1 (MQ=255)

AAGGCATTGGGCAAACGCAGGTGAATACCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGT‑GGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAG  >  NC_000913/3459192‑3459386

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A