BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,440,085	G→T	intergenic (‑45/+126)	cspA_2 ← / ← USA300TCH1516_01338	Cold shock protein CspA/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,440,085	0	G	T	98.3%	423.7 / ‑3.1	116	intergenic (‑45/+126)	cspA_2/USA300TCH1516_01338	Cold shock protein CspA/hypothetical protein
Reads supporting (aligned to +/- strand): ref base G (1/1); new base T (58/56); total (59/57)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 116 total aligned reads displayed.

ATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAG  >  USA300TCH1516_ALE/1439998‑1440171

aTCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCat                                                                                     <  1:1830014/91‑1 (MQ=255)

  ccTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCatat                                                                                   <  1:293443/91‑1 (MQ=255)

  ccTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCatat                                                                                   <  1:1897223/91‑1 (MQ=255)

  ccTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCatat                                                                                   <  1:345351/91‑1 (MQ=255)

  ccTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCatat                                                                                   >  1:1398180/1‑91 (MQ=255)

   cTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATAtt                                                                                  >  1:156706/1‑91 (MQ=255)

   cTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATAtt                                                                                  >  1:2783491/1‑91 (MQ=255)

   cTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATAtt                                                                                  >  1:156500/1‑91 (MQ=255)

   cTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATAtt                                                                                  >  1:3545420/1‑91 (MQ=255)

   cTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATAtt                                                                                  >  1:514274/1‑91 (MQ=255)

   cTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATAtt                                                                                  <  1:1476421/91‑1 (MQ=255)

    tttttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTa                                                                                 >  1:2803238/1‑91 (MQ=255)

    tttttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTa                                                                                 >  1:2803557/1‑91 (MQ=255)

     ttttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTAc                                                                                <  1:2536746/91‑1 (MQ=255)

     ttttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTAc                                                                                >  1:2245534/1‑91 (MQ=255)

     ttttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTAc                                                                                <  1:1812799/91‑1 (MQ=255)

      tttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTATAATTCATTCAATATGCTTATTCTCATATTACa                                                                               >  1:3143794/1‑91 (MQ=255)

      tttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACa                                                                               <  1:830409/91‑1 (MQ=255)

        tCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACaaa                                                                             >  1:1803144/1‑91 (MQ=255)

               tAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACa                                                                      >  1:3103972/1‑91 (MQ=255)

                aaaCCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACAt                                                                     <  1:1315007/91‑1 (MQ=255)

                aaaCCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACAt                                                                     >  1:3071392/1‑91 (MQ=255)

                 aaCCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTACAATTCATTCAATATGCTTATTCTCATATTGCAAAAAATACATg                                                                    >  1:3712280/1‑91 (MQ=255)

                 aaCCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATg                                                                    <  1:183080/91‑1 (MQ=255)

                  atggtttAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGc                                                                   >  1:669859/5‑91 (MQ=255)

                   ccATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCa                                                                  >  1:3268726/1‑91 (MQ=255)

                    cATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaa                                                                 >  1:1829522/1‑91 (MQ=255)

                    cATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaa                                                                 <  1:1013897/91‑1 (MQ=255)

                    cATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaa                                                                 <  1:1173632/91‑1 (MQ=255)

                    cATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaa                                                                 <  1:1260047/91‑1 (MQ=255)

                    cATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaa                                                                 >  1:3647225/1‑91 (MQ=255)

                    cATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaa                                                                 >  1:2628566/1‑91 (MQ=255)

                     aTTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaaa                                                                >  1:2008784/1‑91 (MQ=255)

                     aTTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaaa                                                                <  1:2097207/91‑1 (MQ=255)

                     aTTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaaa                                                                >  1:2312863/1‑91 (MQ=255)

                        tAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAAttt                                                             >  1:1080975/1‑91 (MQ=255)

                         aaCTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTc                                                            <  1:3244634/91‑1 (MQ=255)

                          aCTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCa                                                           >  1:2773550/1‑91 (MQ=255)

                          aCTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCa                                                           >  1:2046547/1‑91 (MQ=255)

                           cTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCAc                                                          >  1:2331758/1‑91 (MQ=255)

                           cTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCAc                                                          >  1:854745/1‑91 (MQ=255)

                              tACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCa                                                       <  1:2441164/91‑1 (MQ=255)

                              tACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCa                                                       <  1:2440965/91‑1 (MQ=255)

                               aCCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCaa                                                      >  1:3306502/1‑91 (MQ=255)

                               aCCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCaa                                                      >  1:960445/1‑91 (MQ=255)

                                ccTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCaaa                                                     <  1:370524/91‑1 (MQ=255)

                                ccTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCaaa                                                     <  1:2525323/91‑1 (MQ=255)

                                ccTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCaaa                                                     <  1:96049/91‑1 (MQ=255)

                                ccTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCaaa                                                     <  1:1010376/91‑1 (MQ=255)

                                ccTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCaaa                                                     <  1:1671177/91‑1 (MQ=255)

                                  ttGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAata                                                   >  1:1359102/1‑91 (MQ=255)

                                     tttCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTc                                                >  1:17421/1‑91 (MQ=255)

                                     tttCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTc                                                >  1:714415/1‑91 (MQ=255)

                                      ttCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCt                                               <  1:2677540/91‑1 (MQ=255)

                                       tCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCtt                                              >  1:2003925/1‑91 (MQ=255)

                                       tCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCtt                                              >  1:2383012/1‑91 (MQ=255)

                                          tAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGc                                           <  1:2769244/91‑1 (MQ=255)

                                          tAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGc                                           <  1:2769267/91‑1 (MQ=255)

                                           aaTCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCa                                          >  1:1012487/1‑91 (MQ=255)

                                              cTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAata                                       <  1:290216/91‑1 (MQ=255)

                                              cTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAata                                       >  1:2659951/1‑91 (MQ=255)

                                                gAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATg                                     >  1:2478393/1‑91 (MQ=255)

                                                 aaaCCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATgg                                    <  1:159161/91‑1 (MQ=255)

                                                   aCCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaa                                  >  1:2498246/1‑91 (MQ=255)

                                                   aCCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaa                                  >  1:1369446/1‑91 (MQ=255)

                                                   aCCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaa                                  >  1:2590515/1‑91 (MQ=255)

                                                    ccTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaat                                 >  1:1705703/1‑91 (MQ=255)

                                                    ccTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaat                                 <  1:2994458/91‑1 (MQ=255)

                                                      tCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaataa                               <  1:3402330/91‑1 (MQ=255)

                                                       ccAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaataat                              >  1:888063/1‑91 (MQ=255)

                                                       ccAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaataat                              <  1:100128/91‑1 (MQ=255)

                                                          aGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAatcat                           <  1:138410/91‑1 (MQ=255)

                                                           gACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAatcatc                          >  1:2118488/1‑91 (MQ=255)

                                                            aCTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCt                         <  1:2994957/91‑1 (MQ=255)

                                                            aCTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCt                         <  1:12608/91‑1 (MQ=255)

                                                            aCTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCt                         <  1:13888/91‑1 (MQ=255)

                                                            aCTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAANATTCTTTGCAATATGGAATAATCATCt                         <  1:3132164/91‑1 (MQ=255)

                                                             cTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTg                        >  1:1438536/1‑91 (MQ=255)

                                                               aaaaTTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCt                      <  1:1951256/91‑1 (MQ=255)

                                                               aaaaTTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCt                      <  1:888200/91‑1 (MQ=255)

                                                                aaaTTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCtt                     >  1:2644853/1‑91 (MQ=255)

                                                                   ttcattcaATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAAc                  >  1:2389755/1‑91 (MQ=255)

                                                                   ttcattcaATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAAc                  >  1:2389144/1‑91 (MQ=255)

                                                                    tcattcaATATGCTTATTCTCATATTACAAAAGATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACt                 <  1:1053594/91‑1 (MQ=255)

                                                                     cattcaATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACtt                >  1:1472606/1‑91 (MQ=255)

                                                                       ttcaATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGATTAACTTGt              >  1:3556994/1‑91 (MQ=255)

                                                                        tcaATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACCCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGta             <  1:2165198/91‑1 (MQ=255)

                                                                         caATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGtat            >  1:3616099/1‑91 (MQ=255)

                                                                         caATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGtat            >  1:2169372/1‑91 (MQ=255)

                                                                          aaTATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGtatt           <  1:937464/91‑1 (MQ=255)

                                                                          aaTATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGtatt           <  1:935789/91‑1 (MQ=255)

                                                                           atatGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGtatta          >  1:2012544/1‑91 (MQ=255)

                                                                            tatGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGtattat         <  1:2795645/91‑1 (MQ=255)

                                                                             atGCTTATTCTCATATTACAAAAAATACAGGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATtata        <  1:2976621/91‑1 (MQ=255)

                                                                               gCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGt      >  1:3626001/1‑91 (MQ=255)

                                                                                cTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTg     <  1:2842714/91‑1 (MQ=255)

                                                                                 ttATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGc    <  1:793127/91‑1 (MQ=255)

                                                                                 ttATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGc    <  1:1870592/91‑1 (MQ=255)

                                                                                   aTTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAg  >  1:108784/1‑91 (MQ=255)

                                                                                   aTTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAg  >  1:2765014/1‑91 (MQ=255)

ATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAG  >  USA300TCH1516_ALE/1439998‑1440171

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`