BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,775,029	G→A	5.1%	D719D (GAC→GAT)	clfB ←	Clumping factor B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,775,029	0	G	A	5.1%	334.4 / 3.5	111	D719D (GAC→GAT)	clfB	Clumping factor B
Reads supporting (aligned to +/- strand): ref base G (42/62); new base A (2/4); total (45/66)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01

Only 100 of 173 total aligned reads displayed.

GAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATC  >  USA300TCH1516_ALE/2774889‑2775169

      gAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGtctgagtcgctgtctgagtctgagtcgctgtctgag                                                                                                                                        >  1:629770/1‑141 (MQ=255)

      gAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGtctgagtcgctgtctgagtctgagtcgctgtctgag                                                                                                                                        >  2:1079721/1‑141 (MQ=255)

       aGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTctgagtcgctgtctgagtctgagtcgctgtctgagt                                                                                                                                       >  2:304134/1‑141 (MQ=255)

              gTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATc                                                                                                                                >  1:727120/1‑141 (MQ=255)

              gTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATc                                                                                                                                <  1:266069/141‑1 (MQ=255)

               tctgaatctgaaTCGCTGTCTGAGTCCGACTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGATTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCtgaatctgaatca                                                                                                                               <  4:330366/141‑2 (MQ=11)

                    atctgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatc                                                                                                                          <  1:131517/141‑1 (MQ=255)

                      ctgaatcGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctg                                                                                                                        <  4:181926/141‑1 (MQ=255)

                       tgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctga                                                                                                                       <  2:1130108/141‑1 (MQ=255)

                       tgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctga                                                                                                                       >  1:786065/1‑141 (MQ=255)

                        gaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaa                                                                                                                      >  3:21033/1‑141 (MQ=255)

                         aatcGCTGTCTGGGTCTGAGTCGCTATCTGATTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaat                                                                                                                     <  2:765618/141‑1 (MQ=14)

                          ctcactttCTGAGTCCGAATCGCTATCTGACTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaatc                                                                                                                    <  2:501102/134‑1 (MQ=14)

                            cGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTatctgaatctg                                                                                                                  >  2:651864/1‑141 (MQ=255)

                                gtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTc                                                                                                              <  4:131443/141‑1 (MQ=255)

                                gTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTc                                                                                                              <  3:365616/141‑1 (MQ=255)

                                gTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTc                                                                                                              <  1:605538/141‑1 (MQ=255)

                                    gAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTg                                                                                                          <  1:513004/141‑1 (MQ=255)

                                        ccGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctg                                                                                                      <  1:523966/141‑1 (MQ=255)

                                         cGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctga                                                                                                     >  3:68404/1‑141 (MQ=255)

                                            gtCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTgtctgagtc                                                                                                  <  2:232150/140‑1 (MQ=255)

                                            aTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTGTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTgtctgtgtg                                                                                                  >  4:233500/1‑140 (MQ=255)

                                            aTCGCTATCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctgagtc                                                                                                  <  4:391567/141‑1 (MQ=255)

                                               gCTATCTGAGTCTGAGTCGCTCTCTGAGTCTGAATCGCTATCTGAATCTGAGTCTCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCACTATCTGAGTCTGAGTCGCTgtctgagtctga                                                                                               <  2:331320/141‑1 (MQ=11)

                                                ctgtctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGtctgagtctgag                                                                                              <  2:621943/138‑1 (MQ=255)

                                                cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGtctgagtctgag                                                                                              <  1:301980/141‑1 (MQ=255)

                                                   tctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcg                                                                                           >  2:1165177/1‑141 (MQ=255)

                                                   tctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcg                                                                                           <  1:558671/141‑1 (MQ=255)

                                                      gaatctgaGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctg                                                                                        <  2:484579/141‑1 (MQ=255)

                                                        atctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtc                                                                                      <  3:182352/141‑1 (MQ=255)

                                                        atctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtc                                                                                      <  1:94026/141‑1 (MQ=255)

                                                         tctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtct                                                                                     >  2:923965/1‑141 (MQ=255)

                                                             aGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaat                                                                                 <  2:90920/141‑1 (MQ=255)

                                                              atCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAGTCCGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatc                                                                                >  4:250020/2‑141 (MQ=11)

                                                                cGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctg                                                                              >  3:488432/1‑141 (MQ=255)

                                                                 gCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctga                                                                             <  4:474884/141‑1 (MQ=255)

                                                                   tatctgagtcggaATCGCTATCTGAGTCGGAATCACTGTCGGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGtgtgagtcgctgtatgagtctgagt                                                                           >  2:772899/3‑141 (MQ=11)

                                                                     tctgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcg                                                                         <  1:816512/141‑1 (MQ=255)

                                                                       tgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgct                                                                       <  3:134060/141‑1 (MQ=255)

                                                                       tgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAAtctgaatcgctgtctgagtctgaatcgct                                                                       <  2:984932/141‑1 (MQ=14)

                                                                        gagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctg                                                                      <  1:962991/141‑1 (MQ=255)

                                                                           tctgaGTCGCTATCTGAATCTGAGTCACTCTCTGAGTCTGAGTCGCTCTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGACTCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtct                                                                   <  2:1004162/141‑1 (MQ=11)

                                                                           tctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtct                                                                   >  1:1094188/1‑141 (MQ=255)

                                                                            ctgaTTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctatctg                                                                  <  2:731895/141‑1 (MQ=11)

                                                                            ctgaGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGATTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctatctg                                                                  <  2:103723/141‑1 (MQ=11)

                                                                             tgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtctga                                                                 <  3:62364/141‑1 (MQ=255)

                                                                              gaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGACTCTGAGTCGCAGTCTGAGtctgagtcgctgtctgaatctgaatcgctgtctgac                                                                >  4:470418/1‑140 (MQ=255)

                                                                                aTCGCTGTCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCtgagtcgctgtctgaatctgagtcgctgtctgaatc                                                              <  2:535785/141‑1 (MQ=255)

                                                                                aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCtgagtcgctgtctgaatctgagtcgctgtctgaatc                                                              >  2:279539/1‑141 (MQ=255)

                                                                                aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCtgagtcgctgtctgaatctgagtcgctgtctgaatc                                                              >  1:854619/1‑141 (MQ=255)

                                                                                  cGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGGTGTCTGAGTCTGcgtcggtgtgggaatctgagtcgctctctgagtctg                                                            >  2:823320/1‑141 (MQ=11)

                                                                                  cGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                            <  1:973414/141‑1 (MQ=255)

                                                                                   gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATATGAATCTGAGTCGATGTCTGAGTCTGAgtcgctgtctgaatctgagtcgctgtctgaatctga                                                           <  1:175012/141‑1 (MQ=255)

                                                                                       tctgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTTTCCGAGTCTGTAGCGCTCGCTGGATGTGGTATCCTTTCTGAGTCTAAGTCGctgtctgaatctgagtcgctgtctgaatctgagtcg                                                       >  4:301274/1‑141 (MQ=11)

                                                                                        ctgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGc                                                      <  3:476729/141‑1 (MQ=255)

                                                                                          gaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTg                                                    >  1:696720/1‑141 (MQ=255)

                                                                                           aatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCCGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgt                                                   <  3:299385/141‑1 (MQ=255)

                                                                                            atctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtc                                                  >  3:259506/1‑141 (MQ=255)

                                                                                             tctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtct                                                 >  3:295126/1‑141 (MQ=255)

                                                                                              ctgaGTCGCTATCTGATTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctg                                                <  2:776786/141‑1 (MQ=255)

                                                                                                gaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTC‑‑AG‑‑‑‑TGTCTGAGTCTGAATCGCTGTCTGTGTCTGAGTCGGTGTCCGAGTCTGAGTCGCTGTCTGAGTCTGAGTCAGTGTCTGAATCTGAATCGGTAtctgaatctgaa                                        >  2:797750/1‑141 (MQ=0)

                                                                                                 aGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGTATCTGAATCGCTgtctgtgt                                             >  2:457958/1‑141 (MQ=255)

                                                                                                  gTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtc                                            >  1:656848/1‑141 (MQ=255)

                                                                                                     gCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtctga                                         >  1:190229/1‑141 (MQ=255)

                                                                                                      cTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaa                                        <  1:404973/141‑1 (MQ=255)

                                                                                                        aTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatc                                      <  1:141314/141‑1 (MQ=255)

                                                                                                        aTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatc                                      <  3:149538/141‑1 (MQ=255)

                                                                                                         tctgagtctgagtcgctgtctgagtctgagtcgctgTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcg                                     >  1:572541/1‑141 (MQ=255)

                                                                                                          cggagtctgggtcgctgtctgagtctgagtcgctgtctGAGTCTGAATCGCTGTCTGAATCCGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgc                                    <  2:1136255/139‑1 (MQ=14)

                                                                                                           tgagtctgagtcgctgtctgagtctgagtcgctgtcTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGATTCTGAGTCGCTGtctgaatctgaatcgct                                   <  1:566550/141‑1 (MQ=14)

                                                                                                               tctgagtcgctgtctgagtctgagtcgctgtctgagTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGATTCTGAGTCGCTGTCTGACTCTGAGTCGCTGTCTGAATCTGAATCGCTAtctgagtctgaatcgctatct                               >  4:85470/1‑141 (MQ=255)

                                                                                                               tctgagtcgctgtctgaatctgagtcgctatctgagTCTGAATCACTATCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCACTGtctgaatctgaatcgctatct                               >  3:336869/1‑141 (MQ=1)

                                                                                                                ctgagtcgctgtctgagtctgagtcgctgtctgagtCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctg                              <  2:969788/141‑1 (MQ=255)

                                                                                                                 tgagtcgcgctctgagtctgagtcgctgtctgagtcTGAATCGCTATCTGACTCTGAGTCGCTGTCTGACTCTGAGTCGCCGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgattctgaatcgctatctga                             <  2:708279/141‑1 (MQ=17)

                                                                                                                    gtcgctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTg                                                    <  1:959179/115‑1 (MQ=255)

                                                                                                                    gtcgctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgaatctgaatcgctatctgagtc                          >  2:382977/1‑141 (MQ=255)

                                                                                                                     tcgccgtctgagtatgagtcgctgtctgcgtatgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGtctgagtctgaatcgctatctgagtct                         <  4:48214/141‑1 (MQ=14)

                                                                                                                       gctatctgagtctgaatcactgtctgagtctgaATCGCTATCGGTATCTGAGTCACTGTCTGAGTCAGAATCGCTGTCTGAATCTGAATCGCTGTCTGAATCTGAGTCGCTAtctgagtcggaatcgctatctgagtcgga                       <  4:109818/141‑4 (MQ=11)

                                                                                                                        ctgtctgagtctgagtcgctgtctgagtctgaATCGCTatctga                                                                                                                       >  2:1154677/1‑44 (MQ=40)

                                                                                                                          gtctgagtctgagtcgctgtctgcgtccgaGTCGCTAACCGAATACGAGACGCCATACGTGTCCGCGTCCCAGCCGGAACCGCAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatc                    <  1:113361/141‑1 (MQ=9)

                                                                                                                            ctgagtctgagtcgctgtctgaatctgaATCGCTATCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTTTCTGAATCTGAGTCGCTTTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgc                  >  4:71497/1‑141 (MQ=14)

                                                                                                                             tgagtctgagtcgctgtctgagtctgaCTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGtctgagtctgaatcgctatctgagtctgaatcgct                 <  2:267518/141‑1 (MQ=255)

                                                                                                                             tgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatct                               >  3:313369/1‑127 (MQ=255)

                                                                                                                             tgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatct                               <  4:313369/127‑1 (MQ=255)

                                                                                                                              gagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgcta                >  1:615732/1‑141 (MQ=255)

                                                                                                                                gtctgagtcgctgtctgagtctgaCTCGCTATCTGCATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCtgagtctgaatcgctatctgagtctgaatcgctatc              <  2:1044292/141‑1 (MQ=255)

                                                                                                                                gtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCtgagtctgaatcgctatctgagtctgaatcgctatc              <  2:547926/141‑1 (MQ=255)

                                                                                                                                 tctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGtctgagtctgag                                                                                              >  2:235954/1‑60 (MQ=38)

                                                                                                                                 tctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGtctgagtctgag                                                                                              <  1:235954/60‑1 (MQ=38)

                                                                                                                                   tgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAgtctgaatcgctatctgagtctgaatcgctatctga           <  2:433983/141‑1 (MQ=255)

                                                                                                                                    gagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAgtctgaatcgctatctgagtctgaatcgctatctgaa          >  3:491791/1‑140 (MQ=255)

                                                                                                                                    gagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAgtcagaatcgctatctgaatctgaatcgctatctgaa          >  2:45620/1‑140 (MQ=255)

                                                                                                                                    gagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGtctgaatcgctatctgagtctgaatcgctatctgag          <  1:416569/141‑1 (MQ=255)

                                                                                                                                       tcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTgagtcgctatctgagtcttaggcgctatctgaatct       >  4:242258/1‑141 (MQ=11)

                                                                                                                                         gctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAatcgctatctgagtctgaatcgctatctgagtctga     >  1:681108/1‑141 (MQ=255)

                                                                                                                                          ctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGATTCTGAATCACTTTCTGAGTGTGaatcgctatctgagtctgtctcgctatctgagtctgga    >  3:399139/1‑139 (MQ=17)

                                                                                                                                          ctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAAtcgctatctgagtctgaatcgctatctgagtctgaa    <  1:77853/141‑1 (MQ=255)

                                                                                                                                            gtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGACTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAGTCgctatctgagtctgaatcgctatctgagtctgaatc  <  2:564326/141‑1 (MQ=255)

                                                                                                                                            gtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCgctatctgagtctgaatcgctatctgagtctgaatc  <  1:895525/141‑1 (MQ=255)

                                                                                                                                            gtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCgctatctgagtctgaatcgctatctgagtctgaatc  >  3:420697/1‑141 (MQ=255)

GAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATC  >  USA300TCH1516_ALE/2774889‑2775169

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`