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 I2 R1 780 68.3 3343050 93.5% 3125751 102.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,119,307 C→T *47* (TAG→TAA)  yceO ← uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,119,3070CT100.0% 195.4 / NA 61*47* (TAG→TAA) yceOuncharacterized protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (31/30);  total (31/30)

ATCTTCATAAGTTTAGTGGGTTCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAACTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGCATTAAATAC  >  NC_000913/1119173‑1119427
                                                                                                                                      |                                                                                                                        
aTCTTCATAAGTTTAGTGGGTTCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTaaa                                                                                                                      >  2:1535383/1‑139 (MQ=255)
     cATAAGTTTAGTGGGTTCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATaa                                                                                                                 >  1:178314/1‑139 (MQ=255)
                 gggTTCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATagatc                                                                                                     <  2:178314/139‑1 (MQ=255)
                    ttCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAAcaca                                                                                                           <  2:482263/130‑1 (MQ=255)
                    ttCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAAcaca                                                                                                           >  1:482263/1‑130 (MQ=255)
                     tCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATaaa                                                                                                                >  1:436856/1‑124 (MQ=255)
                     tCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATaaa                                                                                                                <  2:436856/124‑1 (MQ=255)
                        gCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCa                                                                                              <  2:1296883/139‑1 (MQ=255)
                            cAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAAt                                                                                          >  2:363695/1‑139 (MQ=255)
                                 aTGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTaa                                                                                                                       <  1:810988/105‑1 (MQ=255)
                                 aTGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTaa                                                                                                                       >  2:810988/1‑105 (MQ=255)
                                   gTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATaaa                                                                                                                >  1:1533117/1‑110 (MQ=255)
                                   gTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATaaa                                                                                                                >  2:1255748/1‑110 (MQ=255)
                                   gTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATaaa                                                                                                                <  2:1533117/110‑1 (MQ=255)
                                   gTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATaaa                                                                                                                <  1:1255748/110‑1 (MQ=255)
                                      tGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAAt                                                                                >  1:246711/1‑139 (MQ=255)
                                      tGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAAt                                                                                >  2:1034222/1‑139 (MQ=255)
                                              gCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTATCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATAAGATCCATAATTGCCAACAATCCCCagag                                                                        >  1:1596626/1‑139 (MQ=255)
                                                tGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGaa                                                                      <  2:246711/139‑1 (MQ=255)
                                                      aGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGAt                                                                <  1:363695/139‑1 (MQ=255)
                                                         aGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATaaa                                                             >  2:478352/1‑139 (MQ=255)
                                                            aataatCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAaca                                                                                                             <  2:1378381/88‑1 (MQ=255)
                                                            aataatCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAaca                                                                                                             >  1:1378381/1‑88 (MQ=255)
                                                            aataatCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATagatc                                                                                                     <  1:247421/96‑1 (MQ=255)
                                                            aataatCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATagatc                                                                                                     >  2:247421/1‑96 (MQ=255)
                                                            aataatCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCa                                                          >  2:108958/1‑139 (MQ=255)
                                                                 tctcATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATagatc                                                                                                     <  1:856561/91‑1 (MQ=255)
                                                                 tctcATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATagatc                                                                                                     >  2:856561/1‑91 (MQ=255)
                                                                     aTTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCt                                                 <  1:478352/139‑1 (MQ=255)
                                                                               tCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAAtatt                                       <  1:108958/139‑1 (MQ=255)
                                                                               tCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAAtatt                                       <  1:1034222/139‑1 (MQ=255)
                                                                                    cTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtga                                  <  1:1535383/139‑1 (MQ=255)
                                                                                                 agaTTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATaa                                                              <  1:776750/98‑1 (MQ=255)
                                                                                                 agaTTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATaa                                                              >  2:776750/1‑98 (MQ=255)
                                                                                                 agaTTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGa                                                     >  2:561213/1‑107 (MQ=255)
                                                                                                 agaTTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGa                                                     <  1:561213/107‑1 (MQ=255)
                                                                                                   aTTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCcaaca                                                                                  >  1:696517/1‑76 (MQ=255)
                                                                                                   aTTAAATATTTGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCcaaca                                                                                  <  2:696517/76‑1 (MQ=255)
                                                                                                             tGTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGCAt         >  1:1403070/1‑139 (MQ=255)
                                                                                                              gTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAAtatt                                       <  2:1169656/108‑1 (MQ=255)
                                                                                                              gTCAGTTTATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAAtatt                                       >  1:1169656/1‑108 (MQ=255)
                                                                                                                   tttATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATACTATTGATGAGATAGTGCAACAGCCGACGCATTAAATa   >  2:84113/1‑139 (MQ=255)
                                                                                                                    ttATGTCAGTGCGGAAAATTAAAAATAAAACACATAGATAAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGCATTAAATAc  <  2:1596626/139‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGaa                                                                      <  1:35134/62‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGaa                                                                      >  2:35134/1‑62 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGaa                                           <  2:1294187/89‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGaa                                           >  1:1294187/1‑89 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtga                                  >  1:241429/1‑98 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtga                                  <  2:241429/98‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtga                                  <  2:939290/98‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtga                                  >  1:939290/1‑98 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtg                                   <  1:895714/97‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtg                                   >  2:895714/1‑97 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGAc             >  2:290079/1‑119 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGAc             <  1:290079/119‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGc           <  1:1469909/121‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGc           >  2:1469909/1‑121 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGCa          <  2:548916/122‑1 (MQ=255)
                                                                                                                             tGCGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGCa          >  1:548916/1‑122 (MQ=255)
                                                                                                                               cGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtga                                  <  2:404976/96‑1 (MQ=255)
                                                                                                                               cGGAAAATTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATtga                                  >  1:404976/1‑96 (MQ=255)
                                                                                                                                      |                                                                                                                        
ATCTTCATAAGTTTAGTGGGTTCAGCATCAGAGATGTCTGGTGAGTGCTGTAGAAGCAGGAATAATCTCATTCAATTTTTCACGCTAAATGAAAGGGAGATTAAATATTTGTCAGTTTATGTCAGTGCGGAAAACTAAAAATAAAACACATAGATCAGATCCATAATTGCCAACAATCCCCAGAGAAAAAGATAAAGCATCAGATGCTCGCGAATATTATTGATGAGATAGTGCAACAGCCGACGCATTAAATAC  >  NC_000913/1119173‑1119427

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A