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 F1 I1 R1 315 33.5 1889570 98.7% 1865005 80.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,921,309 A→T I248N (ATC→AAC)  atpB ← ATP synthase Fo complex subunit a

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,921,3090AT100.0% 174.3 / NA 47I248N (ATC→AAC) atpBATP synthase Fo complex subunit a
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (32/15);  total (32/15)

AATTAATGTTCTTCAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGATCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGACCAGCAATCAGAAT  >  NC_000913/3921234‑3921385
                                                                           |                                                                            
aaTTAATGTTCTTCAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAg                                                                          >  1:767277/1‑80 (MQ=255)
 aTTAATGTTCTTCAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGa                                                                        >  2:767291/1‑81 (MQ=255)
   tAATGTTCTTCAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGAtg                                                                      >  1:767284/1‑81 (MQ=255)
        ttcttcAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGa                                                                  >  1:767293/1‑80 (MQ=255)
        ttcttcAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGa                                                                  <  1:767221/80‑1 (MQ=255)
            tcAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATg                                                             >  1:767305/1‑81 (MQ=255)
            tcAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATg                                                             >  1:767274/1‑81 (MQ=255)
               gACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGcc                                                          >  2:767272/1‑81 (MQ=255)
                 cGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCa                                                        <  2:767222/81‑1 (MQ=255)
                  gCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCAc                                                       >  1:767299/1‑81 (MQ=255)
                  gCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCAc                                                       >  2:767269/1‑81 (MQ=255)
                   ccATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACg                                                      >  1:767262/1‑81 (MQ=255)
                     aTCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAACATGGCCCACgg                                                     >  2:767281/1‑80 (MQ=255)
                     aTCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACgg                                                     >  2:767306/1‑80 (MQ=255)
                     aTCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGc                                                    <  1:767224/81‑1 (MQ=255)
                     aTCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGc                                                    <  1:767223/81‑1 (MQ=255)
                      tCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGca                                                   >  1:767268/1‑81 (MQ=255)
                       cGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGca                                                   >  2:767276/1‑80 (MQ=255)
                       cGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGca                                                   >  2:767303/1‑80 (MQ=255)
                          cAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACAtt                                               <  2:767225/81‑1 (MQ=255)
                           aGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTc                                              <  2:767226/81‑1 (MQ=255)
                            gATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACAtt                                               >  2:767273/1‑79 (MQ=255)
                              tAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAgg                                           <  2:767227/81‑1 (MQ=255)
                              tAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAg                                            >  1:767275/1‑80 (MQ=255)
                                gACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGa                                          <  2:767228/80‑1 (MQ=255)
                                    aTCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCAc                                     <  2:767229/81‑1 (MQ=255)
                                    aTCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCAc                                     >  1:767298/1‑81 (MQ=255)
                                       gTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACtgt                                  >  2:767278/1‑81 (MQ=255)
                                       gTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACtgt                                  >  1:767279/1‑81 (MQ=255)
                                       gTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACtg                                   <  2:767230/80‑1 (MQ=255)
                                         cAGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGa                                >  1:767295/1‑81 (MQ=255)
                                          aGAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAACGGCCCACGGCACATTCAGGATCCACTGTGac                               >  2:767290/1‑81 (MQ=255)
                                           gAACCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGacc                              <  2:767231/81‑1 (MQ=255)
                                             aCCATGAAGATGAAGGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGaccac                            >  1:767257/1‑81 (MQ=255)
                                                atgaagatgaagGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACcaccac                         >  1:767263/1‑81 (MQ=255)
                                                atgaagatgaagGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACcaccac                         <  1:767232/81‑1 (MQ=255)
                                                   aagatgaagGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACgg                       >  2:767297/1‑80 (MQ=255)
                                                   aagatgaagGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACgg                       >  2:767301/1‑80 (MQ=255)
                                                    agatgaagGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGc                      >  1:767292/1‑80 (MQ=255)
                                                      atgaagGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAAc                   <  2:767233/81‑1 (MQ=255)
                                                          agGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGAc               >  1:767283/1‑81 (MQ=255)
                                                          agGCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGAc               <  2:767234/81‑1 (MQ=255)
                                                           ggCTTGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGAcc              <  2:767235/81‑1 (MQ=255)
                                                               tGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGACCAGc           >  2:767300/1‑80 (MQ=255)
                                                               tGCAGCGTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGACCAGc           >  1:767286/1‑80 (MQ=255)
                                                                     gTAATGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGACCAGCAATCAg     >  1:767282/1‑80 (MQ=255)
                                                                        aTGTTCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGACCAGCAATCAGAAt  >  2:767313/1‑80 (MQ=255)
                                                                           |                                                                            
AATTAATGTTCTTCAGACGCCATCGACAGATAGACGATCGTCAGAACCATGAAGATGAAGGCTTGCAGCGTAATGATCAGGATGTGGAAAATGGCCCACGGCACATTCAGGATCCACTGTGACCACCACGGCAACAGACCAGCAATCAGAAT  >  NC_000913/3921234‑3921385

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A