Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,481,355 G→T 100% A6890E (GCA→GAA)  ebh_1 ← Extracellular matrix‑binding protein ebh

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,481,3550GT100.0% 88.4 / NA 29A6890E (GCA→GAA) ebh_1Extracellular matrix‑binding protein ebh
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (14/15);  total (14/15)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCAGCAGC  >  USA300TCH1516_ALE/1481229‑1481491
                                                                                                                              |                                                                                                                                        
ttCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGct                                                                                                                            >  1:43837/1‑140 (MQ=255)
    gTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTg                                                                                                                        <  2:341447/141‑1 (MQ=255)
     ttCCTGGGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGt                                                                                                                       <  2:28466/141‑1 (MQ=255)
           aGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACttt                                                                                                                 >  1:278585/1‑141 (MQ=255)
            gCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACtttt                                                                                                                <  2:163878/141‑1 (MQ=255)
                  tGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTCATCTAACGTATATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCa                                                                                                          <  2:194688/141‑1 (MQ=255)
                   gAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTATATCAc                                                                                                         >  2:363802/1‑141 (MQ=255)
                      tGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCAt                                                                                                      <  1:175835/141‑1 (MQ=255)
                                     cAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCg                                                                                       <  1:42406/141‑1 (MQ=255)
                                            aGTGTGCGCTTGCTTGATGGTTCAAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTGGATAATGTTTGGTTTTCGTGGTTTTTGGCCGCGGTTAGTTTCCTATGCCCATTATACGCTTGTTTCGTGgttgt                                                                                >  2:51978/1‑141 (MQ=255)
                                            aGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAgttgt                                                                                >  2:96378/1‑141 (MQ=255)
                                                     ttgattgaTGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTATCGTCTGTTACTTTTCTATCCCCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGa                                                                       <  1:106426/141‑1 (MQ=255)
                                                       gattgatGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGaaa                                                                     <  2:135783/141‑1 (MQ=255)
                                                        gttgatGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAg                                                                    <  2:176539/140‑1 (MQ=255)
                                                         ttgatGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGt                                                                   >  1:175337/1‑141 (MQ=255)
                                                           gatGTTTTCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGtgc                                                                 <  2:266533/141‑1 (MQ=255)
                                                            atGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGtgct                                                                >  2:42502/1‑141 (MQ=255)
                                                                 tCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTc                                                           <  1:32348/141‑1 (MQ=255)
                                                                    ggTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATCATGTTTGGTTTTCCTTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTCCAAc                                                        <  1:260506/140‑1 (MQ=255)
                                                                    aGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCCTTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAAc                                                        >  1:52477/1‑141 (MQ=255)
                                                                           gCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGAt                                                 >  1:47723/1‑141 (MQ=255)
                                                                           gCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGAt                                                 >  1:88960/1‑141 (MQ=255)
                                                                                                  gTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTGGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGAGTGGTTCGCATTTGTACCATTTGc                          >  2:183998/1‑141 (MQ=255)
                                                                                                   ttttcgaaCGTAGATAATGTTTTGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCAACATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCt                         <  2:274557/135‑1 (MQ=255)
                                                                                                         aaCGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGCTta                   >  2:35292/1‑141 (MQ=255)
                                                                                                               gATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAataata             <  1:325601/141‑1 (MQ=255)
                                                                                                               gATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAataata             >  2:123736/1‑141 (MQ=255)
                                                                                                                aTAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAatat            >  2:319204/1‑141 (MQ=255)
                                                                                                                  aaTGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATAttt          <  2:175337/141‑1 (MQ=255)
                                                                                                                          gttttCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTcagcagc  <  2:100046/141‑1 (MQ=255)
                                                                                                                              |                                                                                                                                        
TTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCAGCAGC  >  USA300TCH1516_ALE/1481229‑1481491

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: ‑