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 2,289,257 A→C V78G (GTA→GGA)  cdaA ← Cyclic di‑AMP synthase CdaA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,289,2570AC98.5% 201.3 / NA 67V78G (GTA→GGA) cdaACyclic di‑AMP synthase CdaA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base C (31/35);  minor base T (0/1);  total (31/36)
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

TTGAAACCGATTGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGT  >  USA300TCH1516_ALE/2289123‑2289390
                                                                                                                                      |                                                                                                                                     
ttGAAACCGATTGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATcccccc                                                                                                                                  >  1:190682/1‑140 (MQ=255)
ttGAAACCGATTGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATcccccc                                                                                                                                  >  1:661561/1‑140 (MQ=255)
   aaaCCGATTGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCAt                                                                                                                               <  1:394973/140‑1 (MQ=255)
          ttGAATCAATTTCTCTTAGTCTTTCCTATACTTATTTGAAGTATAGCGTTTTAAAAAGCTACCTCTTCCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATaa                                                                                                                        <  2:955561/140‑1 (MQ=255)
          ttGAATCAACTTCTCTTCATCCTTACTATACGCATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATaa                                                                                                                        <  2:144119/140‑1 (MQ=255)
           tGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTCCCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAAc                                                                                                                       >  1:82688/1‑140 (MQ=255)
           tGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAAc                                                                                                                       >  2:951801/1‑140 (MQ=255)
           tGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAAc                                                                                                                       >  1:303231/1‑140 (MQ=255)
           tGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAAc                                                                                                                       >  1:74951/1‑140 (MQ=255)
             aaTCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAACCTAATCCCCCCCATTGAATAACGa                                                                                                                     <  1:638639/140‑1 (MQ=255)
                     tctcTTCATCATTACTATACGTATTAGAAGTATAGCGCGTTAAAACGCTACCTCTACCAAGTTGTTCTCACGCCCGTCTAATTTCTGGTTGGAATATTACTATTACAGCTAAGCCCCCCCATTGAATAACGATCACGaag                                                                                                             >  2:900599/1‑139 (MQ=255)
                          tCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCACCAATTGAATAACGAAATTGaataatat                                                                                                        >  1:373325/1‑138 (MQ=255)
                            accTTTACTATACCTATTAAAATTATATCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCCAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAg                                                                                                      <  1:427384/138‑1 (MQ=255)
                            aTCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTAAATAACGATATCGAATAATTTAg                                                                                                      >  1:683780/1‑140 (MQ=255)
                              cTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCACCTAAATAATGATATCGAATAATTCAGAt                                                                                                    >  2:701993/1‑140 (MQ=255)
                                ttACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGt                                                                                                  >  2:431811/1‑140 (MQ=255)
                                    tataCGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTACa                                                                                              >  1:281166/1‑140 (MQ=255)
                                     ataCGTATTAGAACTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTCAATAACGAGATCGAATAATTTAGATGTTGCAg                                                                                             <  2:711661/140‑1 (MQ=255)
                                       aCGTATTAGAAGTATAGCGTTTTAAAAAGTTACCTCTTCCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTc                                                                                           <  1:384401/140‑1 (MQ=255)
                                       aCGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTc                                                                                           <  1:667331/140‑1 (MQ=255)
                                          tATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAg                                                                                        >  1:947397/1‑140 (MQ=255)
                                           aTTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGAACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCAAATAATTTAGATGTTGCAGTCAAGt                                                                                       >  1:810900/1‑140 (MQ=255)
                                             tAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTc                                                                                     <  2:691959/140‑1 (MQ=255)
                                             tAGAAGGATAGCGTGTTAAAAAGCTACCTCTACCAAGTTGTTGTAACGCACGTCTAATTTCTGGTTGGAATATTATTATTAACGCTCTTCCCCCCCATTGAAGAGCGATATCGAATGATTTAGATGTTGCAGTCAAGTTc                                                                                     <  2:171817/140‑1 (MQ=255)
                                               gaggTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCaa                                                                                   >  2:118901/4‑140 (MQ=255)
                                               gAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTTGTTGGAATATTACTATTTAAGCTAATCCCCTCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCaa                                                                                   <  2:912691/140‑1 (MQ=255)
                                               gAAGCATCGCGATTTAAAAAGCTCTTTCTACGAATTTGTTCTCAAGAACGAAATCTTCCTGGCGGGACGAAGAGTGTTAGATCTAATCCCACCAATTGCATACCGATATCGCATAATTTAGATGTTGCAGTCAAGTTCaa                                                                                   >  2:250368/1‑140 (MQ=255)
                                                aaGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAat                                                                                  >  1:383631/1‑140 (MQ=255)
                                                aaGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAat                                                                                  >  2:830604/1‑140 (MQ=255)
                                                aaGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAat                                                                                  <  1:159339/140‑1 (MQ=255)
                                                            ttAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATATTTTAGATGTTGCAATCAAGTTCAATATCATACTTAta                                                                      >  1:406008/1‑139 (MQ=255)
                                                                aaaGCTACCTCTACCACGTTGTTCTAACGCACGTCTAAGTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGCTGTTGCAGTCAAGTTCAATATCATACTTATcatct                                                                  >  1:558814/1‑136 (MQ=255)
                                                                aaaGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATCATGTAGATGTTGCAGTCAAGCTCAATATCATACATATctgct                                                                  >  2:146956/1‑140 (MQ=255)
                                                                aaaGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATAATTATctgct                                                                  >  2:419970/1‑140 (MQ=255)
                                                                  aGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGa                                                                <  2:60666/140‑1 (MQ=255)
                                                                  aGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGa                                                                <  2:888682/140‑1 (MQ=255)
                                                                   gCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGAc                                                               <  2:176532/140‑1 (MQ=255)
                                                                          ctACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCACCCCATTGAATAACGATATCGAATAATTTAGATGTTTCAGTCAATTTCAATATCATACTTATCTTCTAACCAATAAc                                                        >  1:208244/1‑140 (MQ=255)
                                                                           tACCTAGTTGTTCTAACGCACGTCTTATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAACAATTTAGATGTTGCAGTCAATTTCAATATCATACTTATCTGCTGACCAATAACa                                                       <  1:482818/140‑1 (MQ=255)
                                                                           tACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACCTATCTGCTGACCAATAACa                                                       <  1:531901/140‑1 (MQ=255)
                                                                                 gttgttCTAACGCACGTCTAATTTCTGGTTTGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACt                                                 <  2:74951/140‑1 (MQ=255)
                                                                                 gttgttCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACt                                                 <  1:951801/140‑1 (MQ=255)
                                                                                  ttgttgTAACGCACCTCTAATTTCTGGTTGGAATATTACTACTAAACCTAAGCCCCCCCATTGACTAACGATATCGAATTATTTAGCTGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTa                                                <  2:97794/140‑1 (MQ=255)
                                                                                  ttgttCTAACGCACGTCTAATTTCTGGTTTGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGGTGTTGTAGGCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTa                                                <  1:440191/140‑1 (MQ=255)
                                                                                  ttgttCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTa                                                <  1:523822/140‑1 (MQ=255)
                                                                                  ttgttCTAACGCACGACTAATTTCTGGTTGGAAAATTACTAATAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTa                                                <  1:412288/140‑1 (MQ=255)
                                                                                            gCACGTCCAATTTCTAGTTAGCATCTTACCCTTAAACTCAACCCCCCCCATTTAATAACGATATCGAATAATTTAGATCTTGCAGTCAAGTTCACTATCATACTTCTCTGCTGACCAATAACAATTACTAATATCCCttt                                      <  1:431811/140‑1 (MQ=255)
                                                                                                 tCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTa                                 <  1:804870/140‑1 (MQ=255)
                                                                                                  cTAATTTCTGGTTGGAATATTACTATTAAAGCTCATCCCCCCCATTGAATAACGCTATCGAATAATTTCGATGTTGCAGTCCAGTTCAATATAATACTTCTCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTaa                                >  1:957836/1‑140 (MQ=255)
                                                                                                    aaTTTCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCTATATCATACTTATCTGATGACCAATAACAATTACTAATATGCCTTTAAGTAAtt                              >  2:241427/1‑140 (MQ=255)
                                                                                                      tttCTGGTTGGCATATTACTATTAAAGCTTATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGt                            <  1:761354/140‑1 (MQ=255)
                                                                                                      tttCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGt                            <  1:962959/140‑1 (MQ=255)
                                                                                                      tttCTGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTCAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGt                            >  2:999003/1‑140 (MQ=255)
                                                                                                        tCTTGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTAt                          <  1:93494/140‑1 (MQ=255)
                                                                                                          tcgtcggAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATATTTTAGATGTTGCAGTCAAGTTTAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCg                        <  1:262822/135‑1 (MQ=255)
                                                                                                          tGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCg                        >  2:663271/1‑140 (MQ=255)
                                                                                                          tGGTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACAAATAACAATTACTAATATCCCTTAAAGTAATTgaaacg                        >  1:782029/1‑135 (MQ=255)
                                                                                                          gggTTGGAATATTACTATTAAATCTTATTCCCCCCATTTAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTGCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCg                        <  1:312203/139‑1 (MQ=255)
                                                                                                           ggTTGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGc                       >  2:353616/1‑140 (MQ=255)
                                                                                                             ttGGAATATTACTATTAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCtt                     <  2:303231/140‑1 (MQ=255)
                                                                                                             ttGGAATATTACTATTAAAGCTAACCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCtt                     <  2:82688/140‑1 (MQ=255)
                                                                                                              ttgAATATTACTATTACTGCTAATCACACCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCttt                    <  1:332367/138‑1 (MQ=255)
                                                                                                                   tatTACTATTAAAGTTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATATTTATCTGCTGACCCATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTc               <  2:346926/140‑1 (MQ=255)
                                                                                                                   tatTACTAATAAAGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTc               <  2:914482/140‑1 (MQ=255)
                                                                                                                               aGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATTTTTCTTTAAGTAATAGTATCGCTTTAGTTCCCTTAAAGAcct   >  1:430471/1‑139 (MQ=255)
                                                                                                                               aGCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCg   <  1:45268/140‑1 (MQ=255)
                                                                                                                                gCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGt  >  2:82718/1‑140 (MQ=255)
                                                                                                                                gCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATAGTATCGCTTTAGTTCCCTTAAAGAcatt  >  2:853553/1‑137 (MQ=255)
                                                                                                                                gCTAATCCCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAAGATCGTACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGt  >  2:806030/1‑140 (MQ=255)
                                                                                                                                      |                                                                                                                                     
TTGAAACCGATTGAATCAATTTCTCTTCATCTTTACTATACGTATTAGAAGTATAGCGTTTTAAAAAGCTACCTCTACCAAGTTGTTCTAACGCACGTCTAATTTCTGGTTGGAATATTACTATTAAAGCTAATACCCCCCATTGAATAACGATATCGAATAATTTAGATGTTGCAGTCAAGTTCAATATCATACTTATCTGCTGACCAATAACAATTACTAATATCCCTTTAAGTAATTGTATCGCTTTAGTTCCCTTAAAGACCGT  >  USA300TCH1516_ALE/2289123‑2289390

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A