BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,775,089	A→G	7.7%	D699D (GAT→GAC)	clfB ←	Clumping factor B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,775,089	0	A	G	7.7%	801.5 / 15.1	364	D699D (GAT→GAC)	clfB	Clumping factor B
Reads supporting (aligned to +/- strand): ref base A (178/141); new base G (7/25); total (192/172)
Fisher's exact test for biased strand distribution p-value = 2.99e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 530 total aligned reads displayed.

GAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCACTATCTGATTCTGAGTCGCTATC  >  USA300TCH1516_ALE/2774949‑2775229

 aGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTCAGTCTGCGTTCCTCTGGTAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaat                                                                                                                                             <  1:3224387/141‑1 (MQ=14)

  gTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatc                                                                                                                                            >  1:3093520/1‑141 (MQ=255)

  gTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatc                                                                                                                                            <  1:2312150/141‑1 (MQ=255)

  gTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatc                                                                                                                                            <  1:1600113/141‑1 (MQ=255)

  gTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCACTGTCTGAGTCTGAATCGCTATCTGTATCTGAGTCGCTGTCTGAGtctgaatcgctgtctgaatc                                                                                                                                            >  2:3665926/1‑141 (MQ=255)

   tctggatctgtgtcggaGTCTCTGTCTGGGTCTGAGTCGCTCTCTGAGTCTGAGTCGCTGTCTGTGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGtctgaatcgctgtcagaatct                                                                                                                                           <  2:2702010/135‑1 (MQ=1)

      cTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgag                                                                                                                                        <  1:3838095/141‑1 (MQ=255)

      cTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATAAACGtatgagtctgtgtctgaatctgag                                                                                                                                        >  1:2761962/1‑141 (MQ=17)

          ctgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgc                                                                                                                                    <  1:4280850/141‑1 (MQ=255)

          ctgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgc                                                                                                                                    >  1:847091/1‑141 (MQ=255)

            gagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctg                                                                                                                                  >  1:3711676/1‑141 (MQ=255)

                 tgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtctga                                                                                                                             <  1:3288169/141‑1 (MQ=255)

                  gaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTCTCTGAATCTTAGTCGCTTTCTGCTtctgagtcattgtcttaatcttcgtcgctgtctgac                                                                                                                            >  2:3913148/1‑140 (MQ=11)

                   gaTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTCTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTctgagtcgctgtctgaatctgagtcgctgtctgaat                                                                                                                           <  2:3568855/140‑1 (MQ=255)

                    aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCtgagtcgctgtctgaatctgagtcgctgtctgaatc                                                                                                                          >  1:1986995/1‑141 (MQ=255)

                     tCGCTTTCTGAATCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTgagtcgctgtctgaatctgagtcgctgtctgaatct                                                                                                                         <  2:2539059/141‑1 (MQ=255)

                       gCTATCTGAATCTGAGTCTCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAgtcgctgtctgaatctgagtcgctgtctgaatctga                                                                                                                       <  1:1646940/141‑1 (MQ=255)

                       gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTCTCTGAATCTGAGTCGCTGTCTGAGTCTGAgtcgctctctgactctgaatagctctctgaatgtga                                                                                                                       >  2:2302431/1‑141 (MQ=14)

                        cTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGtctgaatctgaa                                                                                                                      >  1:2200502/1‑141 (MQ=255)

                          gtctgcgtctgaGTCGCTGTCTGGGTCGGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCtgaatctgaatc                                                                                                                    <  2:627969/134‑1 (MQ=14)

                            ctgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGc                                                                                                                  <  1:542593/141‑1 (MQ=255)

                             tgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTCACTCgga                                                                                                                 >  1:989348/1‑139 (MQ=255)

                                atctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAATCGCTCTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTCACTGAATCAGAATCGCTatc                                                                                                              >  2:3523681/1‑141 (MQ=11)

                                 tctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTCAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtct                                                                                                             <  2:2411839/141‑1 (MQ=255)

                                    gaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGACTCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgag                                                                                                          >  1:1300561/1‑141 (MQ=255)

                                     tttCGCTTTCTGAGTGTGATTTGCGGTGTGAGTCTGAGTCTCTGTAATAGTCTGAATCGCTATCAGAATCTGAGTCTCTGTCTGAGTCTGACTCGCTATCTGAATCTGAGTCTCTGTCTGAATCTGAATCGCTgtctgagt                                                                                                         <  2:216065/139‑1 (MQ=14)

                                       tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTGTGAATCGCTATCTGACTCTGTGTCGCTGTCTGGGTCTGAGTCGCTGTCTGCATCTGAGTCGCTGTGTGAATCCGAATCGGTgtctgagcct                                                                                                       >  1:3527452/1‑141 (MQ=17)

                                          ttgtctgtgtctgagtcgctgtctgagtctgagtggctgTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaa                                                                                                    <  2:501253/138‑1 (MQ=14)

                                             tctgagtctgagtcgctgtctgagtctgagtcgctgTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcg                                                                                                 >  1:447285/1‑141 (MQ=255)

                                                gagtctgagtcgctgtctgagtctgagtcgctgtctGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgcta                                                                                              >  1:2620412/1‑141 (MQ=255)

                                                   tctgagtcgctgtctgagtctgagtcgctgtctgagTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGACTCTGCATCGCTGtctgagtctgaatcgctgtct                                                                                           >  2:3238780/1‑141 (MQ=255)

                                                   tctgagtcgctgtctgagtctgagtcgctgtctgagTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatct                                                                                           >  1:39078/1‑141 (MQ=255)

                                                      gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgcgtctgaatcgctgtctgag                                                                                        >  1:1463053/1‑141 (MQ=255)

                                                      gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgag                                                                                        >  1:3115521/1‑141 (MQ=255)

                                                       agccgctgtctgagtctgagtggctgtcggagtctggATCGCTATCTGATTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagt                                                                                       <  2:127573/138‑1 (MQ=17)

                                                         tcgctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAATCTGAATCGCTGtctgtgtctgactcgctatctgagtct                                                                                     >  2:570666/1‑141 (MQ=255)

                                                         ccgatgtctgagtccgagtcgctgtccgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCCGAGTCTGAGTCGCTGTCTGAATCTTAATCCCTGtctgagtctgaatcgctatctgagtct                                                                                     <  1:3969087/137‑1 (MQ=14)

                                                           gctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGATGtctgagtctgaatcactatctgaatctga                                                                                   >  2:1100190/1‑141 (MQ=255)

                                                                 tgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgct                                                                             >  1:2907350/1‑141 (MQ=255)

                                                                     tctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAAGCGCTGTCTgagtctgaatcgctatctaggtctgaatcgccatct                                                                         >  2:3379417/1‑141 (MQ=255)

                                                                     tctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAATCTGAATCGCTGtctgagactgaatcgctatctgagccggaatcgccaccg                                                                         >  2:1893871/1‑136 (MQ=17)

                                                                     tctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAATCGCTGTCTGAATCTGAATCGCTATCTGACCCTGAGACACTTTCTGGATCGCAATCGCTGtctgactctgactcgccatctgcctctaaatcgcttcct                                                                         >  2:1463864/1‑137 (MQ=2)

                                                                      ctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGATCCCCTGTCTGACTCTGACTCGCTGTCTGattcagaatcgctgtctgattctgactccctatctg                                                                        >  2:4207144/1‑141 (MQ=11)

                                                                        gagtcgctgtctgagtctgaATCGCTATCTGAATATGAAAGACTGTCTGAGTCTGAGACGCTGTCTGAGTCTGAATCGCTGTCTGAATCTGAATCGATGTATGagtctgaatcgatatctgagtctgaatagatatttgtt                                                                      >  2:964552/1‑139 (MQ=14)

                                                                             gctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGtctgaatcgctgtctgagtctgaatcgctatctgagcttga                                                                 >  2:1121195/1‑136 (MQ=255)

                                                                              ctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAAtcgctatctgagtctgaatcgctatctgagtctgaa                                                                <  1:1801128/141‑1 (MQ=255)

                                                                                gtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCgctatctgagtctgaatcgctatctgagtctcaatc                                                              >  1:2685299/1‑141 (MQ=255)

                                                                                  ctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGATTCTGAATCGCTATCTGATTCTGAATCGATATCTGAATCCGAATCAc                                                            >  2:1974579/1‑141 (MQ=17)

                                                                                        ctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAATGtctgtctg                                                      >  2:2949594/1‑141 (MQ=255)

                                                                                         tgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGACTCTGAATCGCTGTCTGACTCTGAATCGCTATCTGACTCTGAATCGCGATCCGAGGCAGAATCACTGTCTGa                                                     >  2:71609/1‑141 (MQ=17)

                                                                                         tgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAAGCTGAATCGCTGTGTGAGTCTGACTCGCTATCTGTGTCTGAATGGCTATCTGTGGCTGAATCACtgtgtgt                                                     >  2:3016125/1‑140 (MQ=17)

                                                                                           agtCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGt                                                   <  2:3316571/139‑1 (MQ=255)

                                                                                           aaTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGt                                                   <  1:1581242/141‑1 (MQ=255)

                                                                                           aaTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCCGAGTCCGAATCGCTATCTGAGTCTGAATCACTGTCTGAGt                                                   <  1:3048750/141‑1 (MQ=255)

                                                                                             tCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTCTCTGTGTCTGAATCACTGTCTGAGTcc                                                 >  2:2252305/1‑141 (MQ=255)

                                                                                             tCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTcc                                                 <  1:3791697/141‑1 (MQ=255)

                                                                                             tCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAATCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGACTcc                                                 >  2:803150/1‑141 (MQ=255)

                                                                                              cGCTATCAGGATCTGGGTCGCTATCTGAGTCTGAGTCGCTTTCTGAGTCTGAGTCTCTGTCTGAATCTGACTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCg                                                <  2:3841179/141‑1 (MQ=14)

                                                                                               gCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGa                                               <  1:3265560/141‑1 (MQ=255)

                                                                                               gCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCCGAGTCTGAATCACTGTCTGAGTCCGa                                               <  1:2991764/141‑1 (MQ=255)

                                                                                                cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAg                                              >  1:1871313/1‑141 (MQ=255)

                                                                                                cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATAGCTATCTGAGTCTGAATCACTGTCTGAGTCCggg                                              >  1:2789418/1‑139 (MQ=255)

                                                                                                cTATCTGAATCGGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAg                                              <  1:1718783/141‑1 (MQ=255)

                                                                                                 tgtctgaatctggGTCGTTGTTGGGGTATGGCTGGCTGTCTGATGCTGAGTCGCTTTCTGAGTCTTAGTCGCTGTCTGGGTCTGAGTCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGt                                             <  2:1825934/139‑1 (MQ=11)

                                                                                                   tctgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTATGAATCTGAGTCGCTGTCTGACTCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGACGCTGAATCGCTCTCTGAGTCCGCGTCa                                           >  2:1371842/1‑141 (MQ=17)

                                                                                                      gaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGATTCTGAATCGCTATCTGAATCTGAATCGCTATCTGAGTCCGATGCACTGTGTGGGTCCGCGttccgg                                        >  2:281799/1‑136 (MQ=17)

                                                                                                      gaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCTAGTCATTg                                        >  1:52412/1‑141 (MQ=255)

                                                                                                         tctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCt                                     >  1:4036242/1‑141 (MQ=255)

                                                                                                         tctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCGATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCt                                     <  1:2455113/141‑1 (MQ=255)

                                                                                                         tccgggTCGCTTTCTGAGTCTGAGTCGCTGTCTGATTCTGAGTGGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCt                                     <  2:4388999/136‑1 (MQ=17)

                                                                                                          ctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTg                                    >  1:763082/1‑141 (MQ=255)

                                                                                                          ctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTg                                    >  1:2498683/1‑141 (MQ=255)

                                                                                                             ggtggCTGTGTGAGTGTGAGTGGCTGTTTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAAt                                 <  2:1626616/137‑1 (MQ=17)

                                                                                                             ggtcgctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAAt                                 <  1:238110/140‑1 (MQ=14)

                                                                                                             aGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAAt                                 >  1:926883/1‑141 (MQ=255)

                                                                                                                cGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGACTCACTGTCTGAGTCCGAGTCACTGTCTGATTCTg                              >  1:3658929/1‑141 (MQ=255)

                                                                                                                 gCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGa                             >  1:3468759/1‑141 (MQ=255)

                                                                                                                  cTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTCTCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCTCTGTCTCAATCTGAc                            >  2:1713983/1‑141 (MQ=17)

                                                                                                                    gtctgagtctgaGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTc                          <  1:4227313/141‑1 (MQ=255)

                                                                                                                     tctgagtctgagTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAATCACGATCCGTCTCGGAGTCACTGTCTGGATCTGAGTcc                         >  2:4034057/1‑140 (MQ=14)

                                                                                                                     tctgagtctgagTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCa                         >  1:3377929/1‑141 (MQ=255)

                                                                                                                      ctgtgtctgagtCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCAc                        <  2:905370/141‑1 (MQ=255)

                                                                                                                        gagtctgagtcGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTATCCAAATTAATCCGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActa                      >  1:2076259/1‑141 (MQ=21)

                                                                                                                         agtctgagtcGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActat                     <  1:1895256/141‑1 (MQ=255)

                                                                                                                          gtctgagtcGCTGTCTGACTCTGAGTCGCTGTCTGACTCTGCATCGCTCTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatc                    <  2:2919538/141‑1 (MQ=255)

                                                                                                                           tctgacgcgctgtcagaatctgagtcgctctctgaaTCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatct                   <  2:549302/141‑1 (MQ=255)

                                                                                                                            ctgagtcgctgtctgaatctgagtcgcttgctgaatCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctg                  <  1:597197/141‑1 (MQ=255)

                                                                                                                            ctgagtcgctgtctgaatctgagtcgctgtctgaatCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctg                  <  1:1146308/141‑1 (MQ=255)

                                                                                                                              gagtcgctgtctgaatctgagtcgctgtctgaatctGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGCGTCCctatctgat                >  1:1088181/1‑141 (MQ=255)

                                                                                                                                gtcgttgtctgagtctgggtcgctccctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattc              <  2:1553006/141‑1 (MQ=18)

                                                                                                                                gtcgctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattc              >  1:1376736/1‑141 (MQ=255)

                                                                                                                                 tcgctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGCGTCCGAGTCACTGTCTGAATCTGACTCActatctgattct             >  1:1206897/1‑141 (MQ=255)

                                                                                                                                 tcgctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGACTCTGACTCActatctgattct             >  1:4387266/1‑141 (MQ=255)

                                                                                                                                  cgctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctg            <  1:689132/141‑1 (MQ=255)

                                                                                                                                      gtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctgagtc        >  1:4186487/1‑141 (MQ=255)

                                                                                                                                       tctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTTTGACACGCGATCTGAGTCTGCATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActctctgattctgcgccg       >  1:413636/1‑136 (MQ=18)

                                                                                                                                        ttgagtctgattcgctgtctgaatctcaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctgagtcgc      <  2:1775612/140‑1 (MQ=255)

                                                                                                                                         tgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctgagtcgct     >  1:3314581/1‑141 (MQ=255)

                                                                                                                                            atctgcgtcgctgtctgattctgaTTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGTATCACTGTCTGCGTCCGAGTCACTGTCTGACTCTGACTCActatctgattctgagtcgctatc  <  2:3094527/141‑1 (MQ=18)

                                                                                                                                            atctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctgagtcgctatc  <  1:1017635/141‑1 (MQ=255)

GAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCACTATCTGATTCTGAGTCGCTATC  >  USA300TCH1516_ALE/2774949‑2775229

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: `‑`