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
A4 F1 I1 R1 765 39.6 1867486 94.4% 1762906 108.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,786,746 Δ1 bp pseudogene (350/2253 nt) ygaQ → uncharacterized protein, putative enzyme

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,786,7460C.100.0% 292.5 / NA 66pseudogene (350/2253 nt)ygaQuncharacterized protein, putative enzyme
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (33/33);  total (33/33)

TCTGTTAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGC  >  NC_000913/2786612‑2786857
                                                                                                                                      |                                                                                                               
tCTGTTAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGa                                                                                                            >  1:435121/1‑139 (MQ=255)
tCTGTTAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGa                                                                                                            >  2:644721/1‑139 (MQ=255)
    ttAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGa                                                                                                        >  2:305385/1‑139 (MQ=255)
            cGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTg                                                                                                >  2:628714/1‑139 (MQ=255)
              aTTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGAt                                                                                              >  1:145703/1‑139 (MQ=255)
              aTTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGAt                                                                                              >  1:876353/1‑139 (MQ=255)
                   aaaaTTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                         <  2:18414/139‑1 (MQ=255)
                      aTTTCCCTTTCTCCAGATACAACTTACCGTGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGTAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCgg                                                                                      <  1:628714/139‑1 (MQ=255)
                        ttCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGgtg                                                                                    <  2:876353/139‑1 (MQ=255)
                           ccTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGttt                                                                                 <  2:311924/139‑1 (MQ=255)
                             tttCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTAt                                                                               <  2:415493/139‑1 (MQ=255)
                                  ccAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTa                                                                          <  1:839193/139‑1 (MQ=255)
                                          aaCTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTg                                                                  <  1:127191/139‑1 (MQ=255)
                                           aCTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGa                                                                                                        <  1:497509/100‑1 (MQ=255)
                                           aCTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGa                                                                                                        >  2:497509/1‑100 (MQ=255)
                                              tACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGa                                                              <  2:435121/139‑1 (MQ=255)
                                              tACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGa                                                              <  1:644721/139‑1 (MQ=255)
                                               aCCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGaa                                                             >  1:593284/1‑139 (MQ=255)
                                                       ttGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAc                                                     >  1:562905/1‑139 (MQ=255)
                                                        tGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                    <  2:503545/139‑1 (MQ=255)
                                                        tGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTAACAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                    <  2:562905/139‑1 (MQ=255)
                                                                    cacaGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCg                                                                                       >  2:222482/1‑92 (MQ=255)
                                                                    cacaGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCg                                                                                       <  1:222482/92‑1 (MQ=255)
                                                                    cacaGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCt                                        >  2:62697/1‑139 (MQ=255)
                                                                         cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCgg                                                                                      >  1:786431/1‑88 (MQ=255)
                                                                         cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCgg                                                                                      <  2:786431/88‑1 (MQ=255)
                                                                         cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtat                                            <  2:576580/130‑1 (MQ=255)
                                                                         cGTAGCATTACAGCGCCAGACAGGATAGAAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTCAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtat                                            >  1:576580/1‑130 (MQ=255)
                                                                                   cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTa                                                                          >  1:175273/1‑90 (MQ=255)
                                                                                   cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTa                                                                          <  2:175273/90‑1 (MQ=255)
                                                                                   cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCa                         >  2:201263/1‑139 (MQ=255)
                                                                                   cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCa                         >  1:879458/1‑139 (MQ=255)
                                                                                   cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCa                         >  1:746878/1‑139 (MQ=255)
                                                                                   cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCa                         <  1:388241/139‑1 (MQ=255)
                                                                                    aGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaa                        <  2:108191/139‑1 (MQ=255)
                                                                                     gcgcCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaaa                       >  2:434866/1‑139 (MQ=255)
                                                                                        ccAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCg                                                                                       >  2:573750/1‑72 (MQ=255)
                                                                                        ccAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCg                                                                                       <  1:573750/72‑1 (MQ=255)
                                                                                        ccAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGa                    <  2:746878/139‑1 (MQ=255)
                                                                                          aGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATa                  <  2:879458/139‑1 (MQ=255)
                                                                                          aGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATa                  >  2:838566/1‑139 (MQ=255)
                                                                                           gACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                         >  1:888157/1‑67 (MQ=255)
                                                                                           gACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                         <  2:888157/67‑1 (MQ=255)
                                                                                           gACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATaa                 >  2:605827/1‑139 (MQ=255)
                                                                                              aGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAata              <  2:593284/139‑1 (MQ=255)
                                                                                                gATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTg                                                                  >  1:68721/1‑85 (MQ=255)
                                                                                                gATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTg                                                                  <  2:68721/85‑1 (MQ=255)
                                                                                                gATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATg            >  2:444842/1‑139 (MQ=255)
                                                                                                gATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATg            <  1:434866/139‑1 (MQ=255)
                                                                                                gATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATg            <  1:201263/139‑1 (MQ=255)
                                                                                                  tAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtat                                            <  1:610439/105‑1 (MQ=255)
                                                                                                  tAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtat                                            >  2:610439/1‑105 (MQ=255)
                                                                                                     gagaAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATAGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGTTAAATATGTTGCa       >  2:614160/1‑139 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                         >  1:690725/1‑52 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                         <  1:730543/52‑1 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                         >  2:730543/1‑52 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                         <  2:690725/52‑1 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGTGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCata     >  1:656404/1‑136 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGTGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCata     <  2:656404/136‑1 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGttt                                                                                 >  2:205360/1‑60 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGttt                                                                                 <  1:205360/60‑1 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTg                                                               >  2:755426/1‑78 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTg                                                               <  1:755426/78‑1 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                    <  2:418143/89‑1 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                    >  1:418143/1‑89 (MQ=255)
                                                                                                          agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGc  >  1:422635/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                               
TCTGTTAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGC  >  NC_000913/2786612‑2786857

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A