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
A16 F125 I0 R1	327	181.4	8809959	94.1%	8290171	99.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	3,658,003	C→G	20.2%	intergenic (+436/‑363)	hdeD → / → gadE	acid‑resistance membrane protein/gad regulon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,658,003	0	C	G	20.2%	510.6 / 122.7	218	intergenic (+436/‑363)	hdeD/gadE	acid‑resistance membrane protein/gad regulon transcriptional activator
Reads supporting (aligned to +/- strand): ref base C (97/76); new base G (19/25); total (117/101)
Fisher's exact test for biased strand distribution p-value = 1.32e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01

Only 100 of 231 total aligned reads displayed.

CATAAATATCCGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTGAT  >  NC_000913/3657904‑3658102

cATAAATATCCGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATcc                                                                                                     >  2:726034/1‑100 (MQ=255)

 aTAAATATCCGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTTAGGTAATTTCAATGCGTTAAAAGACAGCTGGCAATCCa                                                                                                    <  1:2709234/100‑1 (MQ=255)

  tAAATATCCGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCaa                                                                                                   >  2:3836227/1‑100 (MQ=255)

   aaaTATCCGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAAt                                                                                                  >  1:4377451/1‑100 (MQ=255)

     atatCCGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAAATTCAATGCGTTAAAAGAAAGATGGCAATCCAATTg                                                                                                >  1:2544483/1‑100 (MQ=255)

        tCCATGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCa                                                                                             >  1:3961176/1‑100 (MQ=255)

         ccGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAg                                                                                            <  1:106522/100‑1 (MQ=255)

          cGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGc                                                                                           <  1:235681/100‑1 (MQ=255)

          cGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGc                                                                                           <  2:3040082/100‑1 (MQ=255)

          cGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGc                                                                                           <  1:180732/100‑1 (MQ=255)

           gtgtCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCt                                                                                          <  2:1723145/100‑1 (MQ=255)

           gtgtCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCt                                                                                          <  2:1934978/100‑1 (MQ=255)

           gtgtCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCt                                                                                          <  2:4280881/100‑1 (MQ=255)

           gtgtCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCt                                                                                          <  2:2506840/100‑1 (MQ=255)

           gtgtCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCt                                                                                          <  2:2628343/100‑1 (MQ=255)

           gtgtCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCt                                                                                          <  2:4066864/100‑1 (MQ=255)

           gtgtCTACAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCt                                                                                          <  2:819356/100‑1 (MQ=255)

             gtCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCttt                                                                                        <  2:2215928/100‑2 (MQ=255)

             gtCGCCAGACGCTATATAAAAACCTGAACACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCttt                                                                                        <  1:845332/100‑2 (MQ=38)

              tctcCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCtttc                                                                                       <  1:2195090/100‑3 (MQ=38)

                 ccAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTc                                                                                    <  1:208153/100‑1 (MQ=255)

                 ccAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTc                                                                                    >  1:1396324/1‑100 (MQ=255)

                  cAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCg                                                                                   >  1:2387766/1‑100 (MQ=255)

                   aGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATTGGATTGCCAGCtttctttta                                                                                  <  1:2929107/100‑8 (MQ=37)

                       gCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACa                                                                              >  1:1471804/1‑100 (MQ=255)

                         tatataAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAg                                                                            <  1:3836203/100‑1 (MQ=255)

                         tatataAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAg                                                                            >  2:4101880/1‑100 (MQ=255)

                          atataAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAgg                                                                           >  2:1449355/1‑100 (MQ=255)

                           tataAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACagatc                                                                          >  1:3537082/1‑96 (MQ=255)

                           tataAAAACCTGAAGACATGAATGCGTTATTTACTCAGATAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTAACAGCTTAAATCGAAACAAGga                                                                          >  1:3681116/1‑100 (MQ=255)

                            ataAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGgag                                                                         >  2:2067843/1‑100 (MQ=255)

                                aaaCCTGAAGACATGAATGCGTTATATACTCAGATAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGgaga                                                                        <  1:4270655/97‑1 (MQ=255)

                                   ccTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGat                                                                  >  1:1166325/1‑100 (MQ=255)

                                     tGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGatat                                                                >  1:780510/1‑100 (MQ=255)

                                      gAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATAtt                                                               >  1:2861869/1‑100 (MQ=255)

                                        aGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTa                                                             <  2:3389432/100‑1 (MQ=255)

                                        aGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTa                                                             <  2:3937203/100‑1 (MQ=255)

                                           naTGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAAt                                                          >  1:4160661/2‑100 (MQ=255)

                                           cATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAAt                                                          >  1:3223934/1‑100 (MQ=255)

                                             tGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATc                                                         >  1:4185243/1‑99 (MQ=255)

                                             tGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCg                                                        >  2:225743/1‑100 (MQ=255)

                                                aTGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGAt                                                     >  1:3167744/1‑100 (MQ=255)

                                                 tGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGAtt                                                    <  2:644428/100‑1 (MQ=255)

                                                        tttACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACAtttt                                             >  1:3421529/1‑100 (MQ=255)

                                                        tttACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACAtttt                                             >  1:366922/1‑100 (MQ=255)

                                                          tccTCAGGTAATTCCAATGCGTTAAAAGAAAACTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTaa                                           >  2:2966703/3‑100 (MQ=255)

                                                          tACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTaa                                           >  1:1012909/1‑100 (MQ=255)

                                                             tCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACtt                                        <  1:1565565/100‑1 (MQ=255)

                                                              cAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACttt                                       >  2:2611916/1‑100 (MQ=255)

                                                              cAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACttt                                       <  1:3371311/100‑1 (MQ=255)

                                                              cAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACttt                                       <  2:1289670/100‑1 (MQ=255)

                                                                ggTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAg                                     >  2:1602290/1‑100 (MQ=255)

                                                                  tAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGt                                    <  1:1726368/99‑1 (MQ=255)

                                                                  tAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTa                                   >  1:699533/1‑100 (MQ=255)

                                                                     tttCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAata                                <  2:110850/100‑1 (MQ=255)

                                                                       tCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATAtt                              >  2:2148067/1‑100 (MQ=255)

                                                                         aaTGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATAttct                            <  1:774107/100‑1 (MQ=255)

                                                                           tGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAATGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATAttcttc                          <  1:546944/100‑1 (MQ=255)

                                                                             cGTTAAAAGAAAGCTGGCAATCCAATTGCCATCTTAACTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCag                        <  1:2966687/100‑1 (MQ=255)

                                                                             cGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCag                        <  2:4133807/100‑1 (MQ=255)

                                                                             cGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCag                        >  2:2513070/1‑100 (MQ=255)

                                                                             cGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCag                        >  2:56352/1‑100 (MQ=255)

                                                                                tAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAgaga                     <  2:2379391/100‑1 (MQ=255)

                                                                                 aaaaGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGAt                    >  1:4304096/1‑100 (MQ=255)

                                                                                 aaaaGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGAt                    <  2:3547776/100‑1 (MQ=255)

                                                                                  gacttaagCTGGGAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATCACATTTTACCTTTAGTAATATTCTTCagag                      >  1:2014705/6‑97 (MQ=37)

                                                                                  aaagaaagCTGGCAATCCAATTGCCAGCTTTTTTCTAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGTTc                   >  1:1916335/1‑100 (MQ=255)

                                                                                  aaagaaagCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATc                   >  2:1554766/1‑100 (MQ=255)

                                                                                  aaagaaagCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATc                   >  2:3719465/1‑100 (MQ=255)

                                                                                  aaagaaagCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATc                   <  1:1308594/100‑1 (MQ=255)

                                                                                   acttaagCTGGCAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATca                  >  2:1805957/5‑100 (MQ=38)

                                                                                   aagaaagCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATcn                  <  2:4160690/100‑2 (MQ=255)

                                                                                   aagaaagCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATca                  <  1:218098/100‑1 (MQ=255)

                                                                                    agaaagCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATcac                 <  2:2243928/100‑1 (MQ=255)

                                                                                        agCTGGCAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAAc             >  1:2656868/1‑100 (MQ=255)

                                                                                        agCTGGCAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAAc             >  2:3274395/1‑100 (MQ=255)

                                                                                        agCTGGCAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAAc             >  2:2384637/1‑100 (MQ=255)

                                                                                        agCTGGCAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAAc             >  2:4148471/1‑100 (MQ=255)

                                                                                        agCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAAc             <  2:3223951/100‑1 (MQ=255)

                                                                                         ncTGGCAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACt            >  2:2151061/2‑100 (MQ=255)

                                                                                         gCTGGCAATTGGATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACt            >  2:376062/1‑100 (MQ=255)

                                                                                         gCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACt            <  1:456719/100‑1 (MQ=255)

                                                                                         gCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACt            <  1:3160089/100‑1 (MQ=255)

                                                                                         gCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACt            >  2:1047222/1‑100 (MQ=255)

                                                                                         gCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACCCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACt            <  2:2892231/100‑1 (MQ=255)

                                                                                          cTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTg           >  2:1425659/1‑100 (MQ=255)

                                                                                           tGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTgg          >  2:2950684/1‑100 (MQ=255)

                                                                                           tGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTgg          <  2:183870/100‑1 (MQ=255)

                                                                                           tGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTgg          <  1:1129914/100‑1 (MQ=255)

                                                                                             gCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGtt        <  2:868118/100‑1 (MQ=255)

                                                                                              cAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTa       <  1:4059786/100‑1 (MQ=255)

                                                                                                aaccAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTAtt     <  1:2491952/98‑1 (MQ=255)

                                                                                                 tCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTg    <  1:3349717/100‑1 (MQ=255)

                                                                                                  ccAATTGCCAGCTTAAGTCGAAACAAGGATACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTGa   <  1:1020628/100‑1 (MQ=255)

                                                                                                  ccAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTg    <  1:2290504/99‑1 (MQ=255)

                                                                                                  ccAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTGa   >  1:1941045/1‑100 (MQ=255)

                                                                                                   cAATTGCCAGTTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTGAt  <  1:1037556/100‑1 (MQ=255)

                                                                                                   cAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTgn   <  1:1263309/99‑2 (MQ=255)

                                                                                                   cAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTGAt  <  2:1625415/100‑1 (MQ=255)

                                                                                                   cAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTGAt  <  1:27612/100‑1 (MQ=255)

CATAAATATCCGTGTCTCCAGACGCTATATAAAAACCTGAAGACATGAATGCGTTATTTACTCAGGTAATTTCAATGCGTTAAAAGAAAGCTGGCAATCCAATTGCCAGCTTAAGTCGAAACAAGGAGACTCGATATTTAAATCGGATTACATTTTAACTTTAGTAATATTCTTCAGAGATCACAAACTGGTTATTGAT  >  NC_000913/3657904‑3658102

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