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	2,373,531	G→T	8.2%	A82E (GCG→GAG)	pbuG ←	Guanine/hypoxanthine permease PbuG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,373,531	0	G	T	8.2%	1086.3 / 50.1	375	A82E (GCG→GAG)	pbuG	Guanine/hypoxanthine permease PbuG
Reads supporting (aligned to +/- strand): ref base G (161/178); new base T (18/15); total (182/193)
Fisher's exact test for biased strand distribution p-value = 4.70e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

Only 100 of 382 total aligned reads displayed.

CCCTAAACCCTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTGCGGG  >  USA300TCH1516_ALE/2373391‑2373671

cccTAAACCCTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCCAAGAATG‑CATTTAATCCCATACCTGGTGCTAACg                                                                                                                                               >  1:1996378/1‑141 (MQ=255)

 ccTAAACCCTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTACTCCCATACCTGGTGCTAACGc                                                                                                                                              >  2:4141216/1‑141 (MQ=255)

   tAAACCCTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCaa                                                                                                                                            >  2:3214341/1‑141 (MQ=255)

     aaCCCTGTGACGGTTAATATCGCAAAGAATATTCGTGGGAATAAGACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACTCAAtt                                                                                                                                          >  1:3472354/1‑141 (MQ=255)

     aaCCCTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAAtt                                                                                                                                          >  1:625477/1‑141 (MQ=255)

      aCCCTGTGACGGTTAATATCGCAAAGAATATACCTGCCAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAACTAATG‑CATTTAATCCCCTACCTGGTCCTATCTCAAtca                                                                                                                                         >  2:3088860/1‑139 (MQ=255)

       cccTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACTCAATTgg                                                                                                                                        >  1:4143899/1‑141 (MQ=255)

       cccTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTgg                                                                                                                                        <  2:2389586/141‑1 (MQ=255)

       cccTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTgg                                                                                                                                        >  1:269452/1‑141 (MQ=255)

       cccTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTgg                                                                                                                                        >  1:2387766/1‑141 (MQ=255)

       cccTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTgg                                                                                                                                        <  2:4014264/141‑1 (MQ=255)

        ccggtgACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGa                                                                                                                                       <  1:3815333/138‑1 (MQ=255)

        ccTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCACCCAGCCTTATTATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACTCAATTGGa                                                                                                                                       <  1:1030793/141‑1 (MQ=255)

         cTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGat                                                                                                                                      >  2:3614302/1‑141 (MQ=255)

         cTGTAAAGGTTAATATCGCAAAGAAAAGACCTGAGAATAAAACGCTTTTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGat                                                                                                                                      <  2:1331681/141‑1 (MQ=255)

          tgtgACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCTCATACATAGTGCTAACGCAATTGGata                                                                                                                                     >  1:2913721/1‑141 (MQ=255)

            tgACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCATGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATAtt                                                                                                                                   >  1:3604096/1‑141 (MQ=255)

            ggACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATAtt                                                                                                                                   <  2:1396476/140‑1 (MQ=255)

              aCGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCGAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATAGGATAATTa                                                                                                                                 >  1:212133/1‑141 (MQ=255)

                ggTTAATATCGCAAAGAATATACCTGAGAACAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACTCAATTGGATATTTAGc                                                                                                                               >  2:865169/1‑141 (MQ=255)

                 gTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCt                                                                                                                              <  1:513508/141‑1 (MQ=255)

                  ttAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCtt                                                                                                                             >  1:3347354/1‑140 (MQ=255)

                  ttAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAACTa                                                                                                                             >  1:3400491/1‑141 (MQ=255)

                      tatCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAg                                                                                                                         <  1:1569456/141‑1 (MQ=255)

                      tatCGAAAAGAATATACCTGAGCACACTACCCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAg                                                                                                                         <  2:3297456/141‑1 (MQ=255)

                            aaaGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCAt                                                                                                                   <  1:961906/141‑1 (MQ=255)

                            aaaGAATATACCGGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCAt                                                                                                                   <  2:3942224/141‑1 (MQ=255)

                              aGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGa                                                                                                                 >  1:3148009/1‑141 (MQ=255)

                               gAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAGTTGGATATTTAGCTATTAGCGCCATGaa                                                                                                                >  1:4383012/1‑141 (MQ=255)

                                aaTATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCAGGAAt                                                                                                               >  1:1181667/1‑141 (MQ=255)

                                 aaataCCTGATAATGAAAATCCTGTTAAACCCACGTGGCAAGGAATAACCATCGTTAACACAACTGTAAATGCAAGTTTGG‑CATTTAATCCCATACCTGGGGCTGCATCCGGTGGTTGTTTAGCTATTAGCCCCATGAATa                                                                                                              <  2:1376790/139‑1 (MQ=255)

                                   ataCCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACTCAATTGGATATTTAGCTATTAGCCCCATGAATAGc                                                                                                            >  1:2554807/1‑141 (MQ=255)

                                         gggaATAAAACGCCTGTTAAGACCACGTGCGAAGGAAGACCCGTGATTAACACAACAGTAAATGCAAAGTATG‑CATTTAATCCCATACGTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAACAGCGAGCCt                                                                                                      <  2:4205216/139‑1 (MQ=255)

                                         gagaATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACTCAATTGGATATTTAGCTATTAACCCCATGACTAGCGAGCCt                                                                                                      >  2:1022904/1‑141 (MQ=255)

                                         gagaATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCt                                                                                                      <  2:1902124/141‑1 (MQ=255)

                                          agaATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGGTTGTCAGAT‑GTTCCGGAGCTGGTGCTAACGCAAGTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTa                                                                                                     <  1:3249951/141‑1 (MQ=255)

                                          agaATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTa                                                                                                     <  1:1409677/141‑1 (MQ=255)

                                              tAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACa‑aa                                                                                                >  1:3691562/1‑141 (MQ=255)

                                               aaaaCGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACTCAATTGGATATTTAGCCATTAGCCCCATGACTAGCGAGCCTACa‑act                                                                                               >  2:1773644/1‑139 (MQ=255)

                                               aaaaCGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AAt                                                                                               <  1:276863/141‑1 (MQ=255)

                                                aaaCGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AAtg                                                                                              >  1:4280397/1‑141 (MQ=255)

                                                aaaCGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AAtg                                                                                              <  1:1637506/141‑1 (MQ=255)

                                                  aCGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AAtgct                                                                                            >  1:2364444/1‑141 (MQ=255)

                                                  aCGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATAAGAACATTGAATAGCGAGCCTACA‑AAtgct                                                                                            >  2:3797032/1‑141 (MQ=255)

                                                   cGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AAtgctg                                                                                           >  1:3641720/1‑141 (MQ=255)

                                                   cGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AAtgctg                                                                                           >  1:1715233/1‑141 (MQ=255)

                                                       tGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTaa                                                                                       >  2:167773/1‑141 (MQ=255)

                                                         ttAAACCAACTTGCCAAGGAATACCCATGGTTCACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATg                                                                                     >  2:2767550/1‑141 (MQ=255)

                                                         ttAAACCAACTTGCCAAGGAATACCCATAGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATg                                                                                     <  2:3490892/141‑1 (MQ=255)

                                                                accTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAAGCCCATACCGGGTGCTAACGCAGTTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGc                                                                              <  1:1294851/139‑1 (MQ=255)

                                                                aaCTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGc                                                                              <  1:480233/141‑1 (MQ=255)

                                                                 aCTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTACCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCCGTCGCt                                                                             >  2:2186118/1‑141 (MQ=255)

                                                                 aCTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTAAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCt                                                                             <  1:3925490/141‑1 (MQ=255)

                                                                  ctgcccAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTa                                                                            <  1:4092994/137‑1 (MQ=255)

                                                                  cTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTa                                                                            <  1:1844969/141‑1 (MQ=255)

                                                                  cTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATACCGCGCCTACA‑AATGCTGCTAATGCAGCAGCTa                                                                            >  2:3703489/1‑141 (MQ=255)

                                                                      ccAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACaaa                                                                        <  2:504633/141‑1 (MQ=255)

                                                                       cAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACaaaa                                                                       <  2:197181/141‑1 (MQ=255)

                                                                       cAACGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACaaaa                                                                       <  1:769000/141‑1 (MQ=255)

                                                                        aaGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTGCacaaa                                                                      >  1:719750/1‑141 (MQ=255)

                                                                        aaGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACaaaaa                                                                      >  1:1057988/1‑141 (MQ=255)

                                                                           gAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATgg                                                                   <  1:1336714/141‑1 (MQ=255)

                                                                             aTACCCATGGTTAGCACAACATTAAATGCAAAGAATG‑CATTTAATCCCAGAGCGGTTGCTAACGCAATTGGATATGTAGCGATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCa                                                                 <  2:723122/141‑1 (MQ=255)

                                                                                   aTGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTgg                                                           <  1:4034957/141‑1 (MQ=255)

                                                                                   aTGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTgg                                                           >  2:2295898/1‑141 (MQ=255)

                                                                                   aTGGTTAACACAACAGTAAAGGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTgg                                                           <  2:2557769/141‑1 (MQ=255)

                                                                                    tGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTGAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGt                                                          >  1:1476373/1‑141 (MQ=255)

                                                                                    tGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCACATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGt                                                          <  2:1468434/141‑1 (MQ=255)

                                                                                       ttAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCa                                                       >  1:301188/1‑141 (MQ=255)

                                                                                         aaCACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCAtt                                                     >  2:2880812/1‑141 (MQ=255)

                                                                                          acacAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCAttt                                                    >  1:1953735/1‑141 (MQ=255)

                                                                                          acacAACAGTAAATGCAAAGAATG‑CATTTAATACCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCAttt                                                    >  1:2452780/1‑141 (MQ=255)

                                                                                           cacaACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCAtttt                                                   <  1:1084231/141‑1 (MQ=255)

                                                                                            acaacaGTAAATGCAGAGAATG‑TATTTAATCCCATACCTGGTGCTAACGTAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTc                                                  <  2:2913721/141‑1 (MQ=255)

                                                                                            acaacaGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTc                                                  <  1:2271798/141‑1 (MQ=255)

                                                                                                   tAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATAtctt                                           <  2:2667724/141‑1 (MQ=255)

                                                                                                    aaaTGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATAtcttc                                          <  2:2227330/141‑1 (MQ=255)

                                                                                                    aaaTGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATAtcttc                                          >  2:1211229/1‑141 (MQ=255)

                                                                                                      aTGCAAAGAATG‑CATGTAAGCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATATCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTg                                        <  2:2481513/141‑1 (MQ=255)

                                                                                                             aaaTG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGGTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGcc                                 <  2:2828638/140‑1 (MQ=255)

                                                                                                              aaTG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCt                                <  1:881554/141‑1 (MQ=255)

                                                                                                                tG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCttt                              >  2:4338555/1‑141 (MQ=255)

                                                                                                                tG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATACCTTCTGATACGCCttt                              <  1:2212910/141‑1 (MQ=255)

                                                                                                                tG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGAAAGCATACACTCTGAAG‑TAATATTAATATAATTAAAATGGCACCTTGGTACATTTACATATCTGCTGATACGCCttt                              <  2:3148009/141‑1 (MQ=255)

                                                                                                                 g‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTa                             >  1:2845855/1‑141 (MQ=255)

                                                                                                                             cATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACGAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTaa                  <  1:2938553/141‑1 (MQ=255)

                                                                                                                             cATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTaa                  >  1:3078732/1‑141 (MQ=255)

                                                                                                                                 ccTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAACCTGTTCGTGGTGGTCGATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACtt              >  1:839169/1‑141 (MQ=255)

                                                                                                                                   tGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCAATCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTaa            <  1:370468/141‑1 (MQ=255)

                                                                                                                                    ggTGCGAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTaaa           <  2:3034258/141‑1 (MQ=255)

                                                                                                                                         tAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTg      <  2:3400491/141‑1 (MQ=255)

                                                                                                                                         tAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCACTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTg      <  2:3893237/141‑1 (MQ=255)

                                                                                                                                         aaaCGCAATTGGACATCTAGCTATGAGCCCCAAGAATACCGGGCCTCCA‑AATGCGGCTAGTGCAGTCGCTACAATAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTg      <  2:1108316/140‑1 (MQ=255)

                                                                                                                                          agcGCAATTGGATACTTAGCTAGTGTCTCGTTGAAGAGTGACGCTATA‑ATTGGTGCTAATGCAGTCGTTACAAGAAGGGCACCTTGGTCCATTTTCATAGCTTCTGATACGCCTTTAACACCTGCTAAACTTACAACTTGc     <  2:588300/139‑1 (MQ=255)

                                                                                                                                           aCGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATCTCATCTGATATGCGGTTTTGTCCTGCTAAACTTAAAACTTGCg    <  1:4196141/141‑1 (MQ=255)

                                                                                                                                           aCGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTGCg    <  1:3374868/141‑1 (MQ=255)

                                                                                                                                           aCGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTGCg    <  2:2054723/141‑1 (MQ=255)

                                                                                                                                           aCGCAATTGGATATTCAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTGCg    <  1:604737/141‑1 (MQ=255)

                                                                                                                                            cGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTGCgg   <  1:2526120/141‑1 (MQ=255)

                                                                                                                                             gCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTGCggg  <  1:1791712/141‑1 (MQ=255)

CCCTAAACCCTGTGACGGTTAATATCGCAAAGAATATACCTGAGAATAAAACGCCTGTTAAACCAACTTGCCAAGGAATACCCATGGTTAACACAACAGTAAATGCAAAGAATG‑CATTTAATCCCATACCTGGTGCTAACGCAATTGGATATTTAGCTATTAGCCCCATGAATAGCGAGCCTACA‑AATGCTGCTAATGCAGTCGCTACAAAAATGGCACCTTGGTCCATTTTCATATCTTCTGATACGCCTTTAACACCTGCTAAACTTAAAACTTGCGGG  >  USA300TCH1516_ALE/2373391‑2373671

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