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
A1 F41 I0 R1 38 250.3 5754022 94.2% 5420288 134.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,279,705 G→A 100% A943V (GCA→GTA)  ebh_3 ← Extracellular matrix‑binding protein ebh

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,279,7050GA100.0% 927.0 / ‑6.5 336A943V (GCA→GTA) ebh_3Extracellular matrix‑binding protein ebh
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (159/170);  minor base T (1/3);  total (161/175)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

Only 100 of 336 total aligned reads displayed.

GTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTGCTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAA  >  USA300TCH1516_ALE/2279575‑2279833
                                                                                                                                  |                                                                                                                                
gTTATTAGTTTATTCTACTTCTTGTTTACTCGTTACATCGTTATTCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                               <  2:1632695/134‑1 (MQ=255)
gTTATTAGTTGATTCTACTTCTGTTTTACTAGTTACATCGTTATCCTTTGTTGGATTGTTTGTTGATGCATCTACACTAGAATTGTGATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACtg                                                                                                                               <  1:250899/134‑1 (MQ=255)
gTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATAATCAGTTGCTGATGTTACtg                                                                                                                               >  1:2002813/1‑134 (MQ=255)
     taGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATCGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTgttgtt                                                                                                                          >  1:1581909/1‑134 (MQ=255)
      aGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGttt                                                                                                                         <  1:832388/134‑1 (MQ=255)
       gTTGATTCTACTTCTGGTTTACTAGTTACTTCGTTATCCATTGTCGGACTGTTTGTTGATGTATTTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTc                                                                                                                        <  1:967284/134‑1 (MQ=255)
       gTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGCTGTTACTGTTGTTTc                                                                                                                        >  2:1867938/1‑134 (MQ=255)
       gTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGAGGTCTCTTATGAACTTCATCAGTTGCTGATGTTACTGTTGTTTc                                                                                                                        >  1:1222870/1‑134 (MQ=255)
       cttGATTCTTCTTCTGTTTTACTAGTTATATCGTTATCCATTGGCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTc                                                                                                                        <  1:2373708/133‑1 (MQ=255)
           aTTTTAGTTCTGGTTTACTATTTACATCGTTTTCCTTTGTCGTACTGTTTGTTTGTGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCt                                                                                                                    <  2:440159/134‑1 (MQ=255)
           aTTCTACTTCTGGTTTACTAGTTACATAGTTACCCATTGTCGGATTGTTTTTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTCTATCATTTCCATCTTCAGTTGCTGATTTTACTGttttttgctgt                                                                                                                    >  2:2865965/1‑129 (MQ=255)
             tCTACTTCTGGTTTACTAGTTACATCGTTTTCCATTGTCGGACTGTTTTTTTATGCATTTACATTTTATTTTTTATTAGTTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGt                                                                                                                  <  1:1114122/134‑1 (MQ=255)
             tCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGt                                                                                                                  >  1:1751024/1‑134 (MQ=255)
             tCTACTTCTGGTTTACTAGTTACATAGTTATGCGATCTCTCACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGt                                                                                                                  <  1:1955699/134‑1 (MQ=255)
              cTACTTCTGGTTTATTAGTTACATCGTTATTCATTGTCGGACTGTTTGTTGATGGATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGtt                                                                                                                 <  1:2766002/134‑1 (MQ=255)
               tACTTCTTGTTTACTATTTACATCGTTATCCATTGTCGTACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                <  1:1310646/134‑1 (MQ=255)
               tACTTCTGGTTTGCTAGTTACGTTGTTATTCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAAGTGTTATTAGCGTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                <  2:2439298/134‑1 (MQ=255)
               tACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTTGAATTGTTATTATCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                <  1:1497732/134‑1 (MQ=255)
               tACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTTTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                <  1:2437470/134‑1 (MQ=255)
               tACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATTTTACTGTTGTTTCACCTGTTg                                                                                                                >  2:1686405/1‑134 (MQ=255)
               tACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                <  1:1811878/134‑1 (MQ=255)
               tACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTg                                                                                                                <  2:1491295/134‑1 (MQ=255)
                aCTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGc                                                                                                               >  2:1353293/1‑134 (MQ=255)
                 cTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGTCTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGcc                                                                                                              <  1:1639539/134‑1 (MQ=255)
                  ttCTGGTTTACTAGTTACATCGTTATCCATTGTCGTACTGTTTGTTTATGCATCTACACTAGAATTATTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCg                                                                                                             <  1:39445/134‑1 (MQ=255)
                       gTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCa                                                                                                        <  2:513138/134‑1 (MQ=255)
                       gTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCa                                                                                                        <  1:2450133/134‑1 (MQ=255)
                        tttACTAGTTACATCGTTATCCATTGTCGGATTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTGACCTGTTGCCGCATCAc                                                                                                       <  2:1047398/134‑1 (MQ=255)
                        tttACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCAc                                                                                                       <  1:1410402/134‑1 (MQ=255)
                         ttACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACATTAGAATTGTTATTAGCTGGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACt                                                                                                      <  1:891045/134‑1 (MQ=255)
                          tACTAGTTACATCGTTATCCATTGTCGGACTTTTTGTTGATGTATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACta                                                                                                     <  1:1024103/134‑1 (MQ=255)
                          tACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAACTTAAGGATAATCATTTGAAACATCAGTTGCTGATGTTACTGTTGTTTAACCTGTTGCCGCATCACta                                                                                                     >  1:58568/1‑134 (MQ=255)
                           aCTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACtat                                                                                                    >  1:1429290/1‑134 (MQ=255)
                                ttACATCGTTATTCATTGTCGGACTGTTTGTTGTTGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTAttt                                                                                               <  2:31045/134‑1 (MQ=255)
                                gtACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTTCACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTAttt                                                                                               <  1:1483331/133‑1 (MQ=255)
                                    aTCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgtg                                                                                           <  2:756122/134‑1 (MQ=255)
                                     tCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTCTTTCACCTGTTGCCGCATCACTATTATTTGgtgt                                                                                          >  2:1258989/1‑134 (MQ=255)
                                     tCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTACGGTTTATCATTTGCATCATAAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGgtgt                                                                                          >  1:1367683/1‑134 (MQ=255)
                                      cGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATTTTACTGTTGTTTCACCTGTTGCAGCATCACTATTATTTGGtgtt                                                                                         >  2:1510175/1‑134 (MQ=255)
                                      cGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTACTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgtt                                                                                         >  1:214291/1‑134 (MQ=255)
                                      cGTTATCCATTGTCGGACTGTTTGTCGATGCTTCTACACTAGAATTGTTATTCGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTCTTTCACCTGTTGCCGCATCACTATCATTTGGtgtt                                                                                         >  1:433390/1‑134 (MQ=255)
                                       gTTATCCATTGTCGGACAGTTTGTATATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTACCGCATCACTATTATTTGGtgttg                                                                                        >  1:2128956/1‑134 (MQ=255)
                                        ttATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGtgttgt                                                                                       >  1:749528/1‑134 (MQ=255)
                                        ttATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACATGTTGCCGCATCACTATTATTTGGtgttgt                                                                                       >  1:340062/1‑134 (MQ=255)
                                          aTCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTCTTTCGTGTTGTCg                                                                                     >  2:221065/1‑134 (MQ=255)
                                           tCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGTTTAAGTGGGAACTAATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCgg                                                                                    >  1:2852031/1‑134 (MQ=255)
                                           tCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCgg                                                                                    >  2:2318958/1‑134 (MQ=255)
                                           tCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCgg                                                                                    >  1:270370/1‑134 (MQ=255)
                                            ccATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGga                                                                                   >  2:2098527/1‑134 (MQ=255)
                                            ccATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGga                                                                                   >  2:1897437/1‑134 (MQ=255)
                                            ccATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTATTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGga                                                                                   >  1:989166/1‑134 (MQ=255)
                                             cATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGgag                                                                                  >  2:2602034/1‑134 (MQ=255)
                                               ttGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCCTCACTCTTATTTGGCTTGGTCgaagaa                                                                                >  2:798942/1‑134 (MQ=255)
                                                 gTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACCATTATTTGGTGTTGTGGGAGAAGc                                                                              >  2:2548505/1‑134 (MQ=255)
                                                   cGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGt                                                                            <  2:549207/134‑1 (MQ=255)
                                                   cGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGACTCATCAGTTACTGATGTTAATATTGTTTCACATGTTGACGCATCAATAAAATTTGAAGTTATCGCAGAAGCga                                                                            >  1:1161843/1‑133 (MQ=255)
                                                      aCTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTg                                                                         >  2:2757103/1‑134 (MQ=255)
                                                      aCTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAATTGATGATGTTACTGTTGTTTCAACTGTAGCCACGTAACTATTATTTGGTGTTGTCGGAGAAGAGTCtc                                                                         >  1:2233360/1‑133 (MQ=255)
                                                       cTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTTCATCATCAGTTGCTGATGTTACTATTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGc                                                                        >  1:1759658/1‑134 (MQ=255)
                                                        tgtttgttGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATAACTATTATTTGGTGTTGTCGGATAAGCGTCTGCt                                                                       >  1:234920/1‑134 (MQ=255)
                                                          tttgttGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCAACTGTTGCAGCATCACTATTATTAGGTGTTGTCGGAGAAGCGTCTGCttt                                                                     >  1:637672/1‑134 (MQ=255)
                                                           ttgttgATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTg                                                                    >  1:2811089/1‑134 (MQ=255)
                                                                gATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGGTGAGTTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGTCAtt                                                               >  2:2129623/1‑134 (MQ=255)
                                                                   gCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCCTTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTCGTCGGAGCAGCGTCTGCTTTGCCATTacc                                                            >  2:624486/1‑132 (MQ=255)
                                                                      tCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgt                                                         >  2:410571/1‑134 (MQ=255)
                                                                         acacTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgtcgt                                                      <  1:1867938/134‑1 (MQ=255)
                                                                          cattAGAATTTTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTgtcgtc                                                     <  2:1818121/131‑1 (MQ=255)
                                                                           acTAGGATTGTTACTAGCTTGCTGTTTATCATCTTCATCATCATTTGTTGATTTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTTTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGtct                                                    <  2:380460/134‑1 (MQ=255)
                                                                              aGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAg                                                 >  1:1467425/1‑134 (MQ=255)
                                                                               gtaTTGTTATTATCTTGTGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGa                                                <  2:2075468/132‑1 (MQ=255)
                                                                               gAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTATTGTTTCACATGTTGCCGCATCACTATCATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAgc                                                >  2:1170431/1‑133 (MQ=255)
                                                                                    gTTATTAGCTTGCTGTTTATCATTTGCATCATCAGTTGTTGATGTTACTGTTGTTTGACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGt                                           <  1:1171143/134‑1 (MQ=255)
                                                                                    gTTATTAGCTTGCGGTTTATGATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGt                                           <  2:226833/134‑1 (MQ=255)
                                                                                    gTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCTTATGCTTTACCATTAGCTGTCGTTTCAGATActa                                           >  1:1131496/1‑132 (MQ=255)
                                                                                      tattaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTa                                         >  2:933513/1‑134 (MQ=255)
                                                                                      tattaGCTTGCGGTTAATCCTTATAGGCTTTAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTa                                         >  2:1606378/1‑134 (MQ=255)
                                                                                       attaGCTTGCGGTTTATCATTTGCATCATCAGTTGTTGATGTTACTGTTTTTTCACCTGTTGTCGCATCACTATTATTTGGTGTTGTCGGAGAAGTGTCTTCGTTGCCATTAGCTGTCGTCTCAGATACGTTAg                                        <  1:807905/134‑1 (MQ=255)
                                                                                       attaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGGTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAg                                        <  2:172739/134‑1 (MQ=255)
                                                                                        ttaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAgg                                       >  2:1297554/1‑134 (MQ=255)
                                                                                        ttaGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAgg                                       >  1:2148742/1‑134 (MQ=255)
                                                                                         taGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCAGAGAAACGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGt                                      >  1:1911635/1‑134 (MQ=255)
                                                                                              tGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTcc                                 <  1:2624231/134‑1 (MQ=255)
                                                                                                cGGTTTATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCCTAACTCTTATTTGGAGTTGTAGGAGAAGCGTATGCTTTGCAATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAg                               >  1:488139/1‑134 (MQ=255)
                                                                                                     tATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGTCGCATCTCTATTTTTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCGGTTGTCTCAGATACGTTAGGTTGTCCAGTAttt                          <  1:2256888/134‑1 (MQ=255)
                                                                                                     tATCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTCCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGACTGCTTTGCCATTACCTGTCGTCTCAGATACGTAACGTTGTCCACTAttt                          >  2:722181/1‑134 (MQ=255)
                                                                                                      aTCATTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTAtttt                         >  1:1614398/1‑134 (MQ=255)
                                                                                                         aTTTGCATCATCAGTTGCTGATGTTACTGTTGTTTCATCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCATGTCATTTAGGTTAGGTTGTCCAGTATTTTCTg                      <  2:1754087/134‑1 (MQ=255)
                                                                                                           ttGCATCGTCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTCTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTATCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGgt                    >  2:1959676/1‑134 (MQ=255)
                                                                                                              catcatCAGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGtt                 <  2:2002813/134‑1 (MQ=255)
                                                                                                                tcatcaGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCAACACTATTCTTTGGTGTTGTCGGAGAAGAGTCTGCTTTGCCATTAGCTGTCGTCCAAGATACGTAAGGTTGTGCAGTATTTTCTGGTGTTGc               >  1:1269817/1‑134 (MQ=255)
                                                                                                                tcatcaGTTGCTGATGTTACTGTTGTGTCACCTGTTGCCGCATCACTATGATTTGGTGTTGTCTGAGGAGCGTCTCACTCGCCCCTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGc               <  2:1425672/134‑1 (MQ=255)
                                                                                                                 catcaGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCa              <  1:773499/134‑1 (MQ=255)
                                                                                                                  gtcaGTTGCTGATGTTAGGGTTGTTGCATCTGTTGCTGCATCAGTATTATTTGGTGTTGTCGTAGAAGCTTCGTCTTTGGCAGTAGCTGTCGTTTCAGATACGTTAGGTTGTCTAGTATTTTCTGGTGTTGCAt             <  2:1940949/133‑1 (MQ=255)
                                                                                                                  atcaGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTTTTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCAt             >  1:165918/1‑134 (MQ=255)
                                                                                                                  atcaGTTGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCAt             >  2:1652842/1‑134 (MQ=255)
                                                                                                                        tGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCAt       <  2:2376822/134‑1 (MQ=255)
                                                                                                                        tGCTGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCATCTGCTTTGCCATTAACTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTATGGTGTTGCATTAGCAt       >  1:727626/1‑134 (MQ=255)
                                                                                                                           tGATGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTg    >  1:2195073/1‑134 (MQ=255)
                                                                                                                             aTGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGaa  <  1:2318958/134‑1 (MQ=255)
                                                                                                                             aTGTTACTGTTGTTTCACCTGTTGCCGCATCACTATTATATGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGaa  >  2:905894/1‑134 (MQ=255)
                                                                                                                                  |                                                                                                                                
GTTATTAGTTGATTCTACTTCTGGTTTACTAGTTACATCGTTATCCATTGTCGGACTGTTTGTTGATGCATCTACACTAGAATTGTTATTAGCTTGCGGTTTATCATTTGCATCATCAGTTGCTGATGTTGCTGTTGTTTCACCTGTTGCCGCATCACTATTATTTGGTGTTGTCGGAGAAGCGTCTGCTTTGCCATTAGCTGTCGTCTCAGATACGTTAGGTTGTCCAGTATTTTCTGGTGTTGCATTAGCATTTGAA  >  USA300TCH1516_ALE/2279575‑2279833

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