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
A5 F178 I1 R1 28 89.4 2015306 95.8% 1930663 139.9

Breseq alignment

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_ALE1,440,0850GT94.3% 201.4 / ‑3.8 72intergenic (‑45/+126)cspA_2/USA300TCH1516_01338Cold shock protein CspA/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/1);  major base T (39/27);  minor base A (0/4);  total (40/32)
Fisher's exact test for biased strand distribution p-value = 3.43e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATAAAAAATATTCATTTAATCAATTA  >  USA300TCH1516_ALE/1439949‑1440221
                                                                                                                                        |                                                                                                                                        
gAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCat                                                                                                                                       >  2:370480/1‑140 (MQ=255)
gAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATACTTATTCTCat                                                                                                                                       >  1:662468/1‑140 (MQ=255)
  aaaaTGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCatat                                                                                                                                     <  2:317558/140‑1 (MQ=255)
    aaTGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTa                                                                                                                                   <  1:787444/140‑1 (MQ=255)
      tGTACGAATACGTCCTTTTCTCCTTCAAATCTGAAAGAGCCGAATCCTTTTGCAGCGTTAAACCATTTAACTGTAACTTGTTTCATAATCAGAAACCACCAAGACTAAAATTCATTCAATATACTTATTGTCATATTaaa                                                                                                                                 >  2:416029/1‑138 (MQ=255)
       gTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTTCac                                                                                                                                >  1:896015/1‑139 (MQ=255)
       gTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACaa                                                                                                                                >  1:896234/1‑140 (MQ=255)
       gTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACaa                                                                                                                                >  1:870072/1‑140 (MQ=255)
          cGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACaaaaa                                                                                                                             <  1:322067/140‑1 (MQ=255)
                cGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTATAAAAAATACAt                                                                                                                       <  2:312840/140‑1 (MQ=255)
                cGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACAt                                                                                                                       <  1:951246/140‑1 (MQ=255)
                 gTCATTTTCTCCTTCAACTTCGCTAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTAAATATGCTTATTCTCATATTACAAAAAATACATg                                                                                                                      <  2:766476/140‑1 (MQ=255)
                   cATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCa                                                                                                                    >  1:54506/1‑140 (MQ=255)
                   cATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTATACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCa                                                                                                                    >  2:77219/1‑140 (MQ=255)
                    aTTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCaa                                                                                                                   >  1:594310/1‑140 (MQ=255)
                       ttCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAATACTAAAATTCATTCAATATGCTTATTCAAAAATAAAAAAAAATACATGCAAAtt                                                                                                                <  2:142923/140‑1 (MQ=255)
                       ttCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAAtt                                                                                                                <  1:107826/140‑1 (MQ=255)
                                aaCTTCGATTAGGCCGAATCCTTTTTCAGCGTGAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACTTGCAAATTTCACTCaaa                                                                                                       <  2:561293/140‑1 (MQ=255)
                                 aCTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAat                                                                                                      <  2:264667/140‑1 (MQ=255)
                                   ttCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAatat                                                                                                    <  2:972761/140‑1 (MQ=255)
                                     cGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTc                                                                                                  >  1:827195/1‑140 (MQ=255)
                                     cGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGAATAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATAttt                                                                                                  >  2:108172/1‑139 (MQ=255)
                                     cGATAAAGCCGAATCCTTTTTCAGCGTTAAAACATTTAACAGGACAATATGTCATAATCTGAAACCTCCAGGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAATAACACGCAAATTTCACTCAAATATTc                                                                                                  >  1:591415/1‑140 (MQ=255)
                                         aaaGTCAAATCTTTTTTCAACGTTAAAACATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATAAAAAAAAAAAAAAAAATACATGCAAATTTCACTCAAATATTCTTTg                                                                                              <  2:233843/140‑1 (MQ=255)
                                           aGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCa                                                                                            <  1:973412/140‑1 (MQ=255)
                                            gCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCACGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTATTTGCaa                                                                                           >  1:16376/1‑140 (MQ=255)
                                                   tcTTTTCCATCCTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCAAAGACTAACATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCCAACTTCACTCAAATATTCTTTGCAATATGGaa                                                                                    <  2:258086/139‑1 (MQ=255)
                                                      ttttCAGCGTTAAACCTTTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaataa                                                                                 >  1:500644/1‑140 (MQ=255)
                                                        ttCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTCCAAAAAATACATGCAAATTTCACTCAAATATTCTTTACAATATGGAATAatc                                                                               >  1:490818/1‑140 (MQ=255)
                                                         tCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAatca                                                                              >  1:6062/1‑140 (MQ=255)
                                                              gTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATACTCATCTGc                                                                         >  1:769325/1‑140 (MQ=255)
                                                              gTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAAGTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGc                                                                         >  2:936528/1‑140 (MQ=255)
                                                               ttAAACCATTTAACTGTACCTTGTTTCATAATCTTAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCt                                                                        <  2:133137/140‑1 (MQ=255)
                                                               ttAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCt                                                                        <  2:256586/140‑1 (MQ=255)
                                                               ttAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCt                                                                        <  2:299364/140‑1 (MQ=255)
                                                                   aCCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGAATAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTacc                                                                    >  1:193708/1‑138 (MQ=255)
                                                                     cATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACtt                                                                  >  1:32942/1‑140 (MQ=255)
                                                                       tttAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAATTTGt                                                                <  1:683940/140‑1 (MQ=255)
                                                                             tGTACCTTGTTTCATTATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATtata                                                          <  1:809354/140‑1 (MQ=255)
                                                                                 ccTTGCTTCATAATCTGCATCTTCCCAGAATAGAATTCAGCCGATATGCGTATTCTCATATTATAAAAAATACATGTAAATTTCACTCAGATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGc                                                      <  2:972512/140‑1 (MQ=255)
                                                                                   ttGTTTCATAATCTTAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATATGATTAACTTGTATTATAGTGCaa                                                    >  2:682900/1‑139 (MQ=255)
                                                                                   ttGTTTCATAATCTGAAACCTCCAAGCCTAAAATTCATTCAATATGATTCTTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAAACATCTGCTTAACTTGTATTATAGTGCaa                                                    >  2:208952/1‑139 (MQ=255)
                                                                                   ttGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAg                                                    >  1:878662/1‑140 (MQ=255)
                                                                                    tGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATCTTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGATTAACTTGTATTATTGTGCAGt                                                   >  2:283604/1‑140 (MQ=255)
                                                                                    tGTATCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTGGTATTACAGTGctga                                                   >  2:944767/1‑137 (MQ=255)
                                                                                      tttCATAATCTGAAACCTCCCAGAATAAAATTCATTCAATATGCTTATTCTCAGATTACAAAAAATACATGAAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGAAGtta                                                 >  2:418412/1‑140 (MQ=255)
                                                                                       ttCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTTCGTTGTATTTTAGTGCTGttat                                                >  1:97396/1‑140 (MQ=255)
                                                                                         caaaaTCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATCTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGttatta                                              <  2:376702/137‑1 (MQ=255)
                                                                                         cATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGttatta                                              <  2:988030/140‑1 (MQ=255)
                                                                                          aaaaTCTTAAACCCCCACTACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCATAACTTCTATTATAGTGCAGTTATTAc                                             <  2:714531/138‑1 (MQ=255)
                                                                                          aTAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGttattcc                                             <  2:560801/140‑3 (MQ=255)
                                                                                            gaTCTGAAACCTCCAAGACTAAAATTCATTCAATATTCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCTAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGGCGTTATTACCa                                           <  2:614762/139‑1 (MQ=255)
                                                                                            aaTCTGAAACCTCCAAGACTAAAATTCATTCAATATGTTTATTCTCATATTACAACAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTACTTAACTTGTATTATATTGAAGttattgaca                                           >  2:508439/1‑136 (MQ=255)
                                                                                            aaTCTGAAACCTCCAAGAATAAAATTCAGTCACTATGCTTATTCAAATATTAAAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCa                                           <  2:18542/140‑1 (MQ=255)
                                                                                              tCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCCCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCaaa                                         >  2:693756/1‑140 (MQ=255)
                                                                                               cTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAAt                                        >  1:799169/1‑140 (MQ=255)
                                                                                                  aaaCCTCCAGGACTAAAATTCATTCAATATGCTTATTTTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAGTATGGAATAATCATTTGCTTAACTTGTATTATAGTGCAGTTATTACCAATTTGc                                     >  2:983166/1‑140 (MQ=255)
                                                                                                  aaaCCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGc                                     >  1:689749/1‑140 (MQ=255)
                                                                                                  aaaCCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGc                                     >  1:540017/1‑140 (MQ=255)
                                                                                                    aCCTCCAAGACTAAAATTCATTCAATATGCTTATTCTCATCTTACAAAAAATACGTGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGcaa                                   >  2:332463/1‑140 (MQ=255)
                                                                                                        ccAAGACTAAAATTCCTTCCATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGcaataca                               >  2:113965/1‑140 (MQ=255)
                                                                                                        acAAGAAAAAAATTCATACCATCTGATAAGTATCATATGACAAAGAAAACACGCAAATATCACTCAAATATGCTGTGCAGTATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGcaataca                               >  2:839982/2‑140 (MQ=255)
                                                                                                          aaGACTAAAATTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGcaatacaat                             <  1:488198/140‑1 (MQ=255)
                                                                                                                  aaTTCATTCAATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATaaaaa                     >  1:135423/1‑140 (MQ=255)
                                                                                                                     tcattcaATATGCTTATTCTCATATTACAAAAAATATAGGTAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAACTTGCAATACAATAATAAAAAata                  >  1:992436/1‑140 (MQ=255)
                                                                                                                       attcaATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATAAAAAATAtt                <  1:711112/140‑1 (MQ=255)
                                                                                                                        ttcaATATGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGAAATACAATAATAAAAAATATTc               >  1:886670/1‑140 (MQ=255)
                                                                                                                             tatGCTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATAAAAAATATTCATTTa          <  1:508448/140‑1 (MQ=255)
                                                                                                                               tGCTTATTCTCATATTACCAAAAATACATGCAAATTTCACTCACATATTCTTTTCAATATGGAATAATCATCTGCTTACGTTGTATTATAGTGCAGTTTTTCCCACATTGCCATACAATAATAAAAACAATTCATTTGAt        >  2:886253/1‑140 (MQ=255)
                                                                                                                                 cTTATTCTCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCACCATCGCCCAAGCAGCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATAAAAAATATTCATTTAATCa      <  1:730938/140‑1 (MQ=255)
                                                                                                                                  ttATTCGCATATTACAAAAAATACATGCCAATTTCCCTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATAAAAAATATTCATTTAATCaa     <  1:416029/140‑1 (MQ=255)
                                                                                                                                     ttCACATATTACAAATAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATAAAAAATATTCATTTAATCAatta  <  2:594310/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                        
GAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGCTTAACTTGTATTATAGTGCAGTTATTACCAAATTGCAATACAATAATAAAAAATATTCATTTAATCAATTA  >  USA300TCH1516_ALE/1439949‑1440221

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