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
A52 F1 I1 R1 19 66.0 4263516 97.2% 4144137 76.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA REL606 4,161,106 A→G E84G (GAA→GGA)  rpoB → DNA‑directed RNA polymerase subunit beta

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6064,161,1060AG100.0% 215.5 / NA 51E84G (GAA→GGA) rpoBDNA‑directed RNA polymerase subunit beta
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (25/26);  total (25/26)

AGAGCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGCGCG  >  REL606/4161034‑4161177
                                                                        |                                                                       
agagCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATg                                                                      >  1:217303/1‑76 (MQ=255)
agagCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATg                                                                      >  2:1889799/1‑76 (MQ=255)
 gagCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGt                                                                     <  1:1701533/76‑1 (MQ=255)
 gagCGACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGt                                                                     <  1:2056337/76‑1 (MQ=255)
  agCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTc                                                                    <  1:1208394/76‑1 (MQ=255)
   gCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCa                                                                   <  2:1320680/76‑1 (MQ=255)
    cTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCaa                                                                  >  1:343219/1‑76 (MQ=255)
     tACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCaaa                                                                 <  2:267852/76‑1 (MQ=255)
      aCAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAAt                                                                <  2:1978006/76‑1 (MQ=255)
       cAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATc                                                               >  2:1325080/1‑76 (MQ=255)
         gCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCg                                                             >  1:2082729/1‑76 (MQ=255)
               aTTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGt                                                       >  1:645663/1‑76 (MQ=255)
                ttCCTAGCTGAAATTCGTCAGCTACCGTCTTGGCGAGCCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTg                                                      <  2:2032305/76‑1 (MQ=255)
                ttCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTg                                                      >  2:1817071/1‑76 (MQ=255)
                  ccGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGAc                                                    <  1:1084329/76‑1 (MQ=255)
                     aGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTa                                                 <  2:1342779/76‑1 (MQ=255)
                        tGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTc                                              >  2:441540/1‑76 (MQ=255)
                         gCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTcc                                             <  1:1817769/76‑1 (MQ=255)
                          cAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCg                                            >  2:417978/1‑76 (MQ=255)
                           aaTACGTCAGCTACCGCCTTGGCGAACCGGTGCTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGc                                           >  2:498387/1‑76 (MQ=255)
                              aCGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCAcc                                        <  1:1009138/76‑1 (MQ=255)
                               cGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCg                                       <  1:724541/76‑1 (MQ=255)
                                gTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGc                                      >  1:1144525/1‑76 (MQ=255)
                                 tCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCt                                     >  1:5895/1‑76 (MQ=255)
                                 tCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCt                                     >  1:1555621/1‑76 (MQ=255)
                                 tCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGCGGCGTGACCTATTCCGCACCGCt                                     >  1:2061906/1‑76 (MQ=255)
                                  cAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTg                                    >  2:709994/1‑76 (MQ=255)
                                   aGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTgc                                   <  1:94883/76‑1 (MQ=255)
                                   aGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTgc                                   <  2:1629977/76‑1 (MQ=255)
                                   aGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTgc                                   >  2:1668891/1‑76 (MQ=255)
                                      tACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGcgcg                                <  1:1275112/76‑1 (MQ=255)
                                       aCCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGt                               >  1:1276615/1‑76 (MQ=255)
                                       aCCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGt                               >  2:957406/1‑76 (MQ=255)
                                         cGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTa                             >  1:855577/1‑76 (MQ=255)
                                           ccgtGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTaaa                           <  1:176869/73‑1 (MQ=255)
                                           ccTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTaaa                           <  2:1113880/76‑1 (MQ=255)
                                               ggCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGc                       <  2:14117/76‑1 (MQ=255)
                                                 cGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGt                     <  2:1384175/76‑1 (MQ=255)
                                                   aaCCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCt                   >  1:1448329/1‑76 (MQ=255)
                                                   aaCCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCt                   <  2:99555/76‑1 (MQ=255)
                                                   aaCCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCt                   <  1:1668929/76‑1 (MQ=255)
                                                    aCCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTg                  <  1:1086809/76‑1 (MQ=255)
                                                      cGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGt                <  1:1230182/76‑1 (MQ=255)
                                                      cGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGCCTggg                >  2:241959/1‑75 (MQ=255)
                                                       ggTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTg               >  1:1017399/1‑76 (MQ=255)
                                                               aCGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGa       >  2:994023/1‑76 (MQ=255)
                                                                cGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAg      >  1:1103020/1‑76 (MQ=255)
                                                                cGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAg      <  2:999442/76‑1 (MQ=255)
                                                                 gTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAgc     <  2:538101/76‑1 (MQ=255)
                                                                 gTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAgc     >  2:141369/1‑76 (MQ=255)
                                                                    cAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGcgcg  <  1:1837562/76‑1 (MQ=255)
                                                                        |                                                                       
AGAGCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGCGCG  >  REL606/4161034‑4161177

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A