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
A2 F17 I0 R1 71 95.7 2922988 91.7% 2680379 65.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,763,556 T→C 33.3% noncoding (288/1542 nt) rrsG ← 16S ribosomal RNA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,763,5560TC33.3% 249.8 / 223.5 219noncoding (288/1542 nt)rrsG16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base T (108/38);  new base C (52/21);  total (160/59)
Fisher's exact test for biased strand distribution p-value = 7.47e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.33e-01

Only 100 of 219 total aligned reads displayed.

TGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCA  >  minE/1763508‑1763613
                                                |                                                         
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAg                                      >  1:1779635/1‑70 (MQ=35)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAg                                      >  1:1748723/1‑70 (MQ=35)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:566369/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:2786932/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:2707764/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:310196/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:33444/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:2310159/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:494539/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:2065803/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:1916762/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:167974/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:1675412/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:1325607/1‑71 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:125712/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCGGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2659388/1‑71 (MQ=21)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                     >  1:501013/1‑64 (MQ=35)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2211540/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:605032/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1971302/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:552248/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:873290/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2192748/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2678084/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2260914/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1221416/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1185250/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2361976/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1148558/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1129657/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2470416/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2876128/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2585186/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1700169/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:948364/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1491327/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:818801/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1576910/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:274238/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:2724212/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:630879/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:896794/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1766058/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1081155/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1786197/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:1823483/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:714060/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                              >  1:665290/1‑71 (MQ=34)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAc                               >  1:2626096/1‑70 (MQ=35)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAc                               >  1:2037179/1‑70 (MQ=35)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCATTgg                                          >  1:2831308/1‑59 (MQ=16)
       tgtCTCAGTTCCAGTGTGGCTGGTCATCATCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCg                                   >  1:1736792/1‑66 (MQ=255)
           tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccac                          >  1:1395656/1‑71 (MQ=21)
           tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccac                          >  1:299878/1‑71 (MQ=21)
           tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccac                          >  1:2505670/1‑71 (MQ=21)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTTGTGAGCCGTTACCCCACCAACAAGCTa                <  1:2249569/71‑1 (MQ=14)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTa                <  1:2773470/71‑1 (MQ=255)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTa                <  1:2185188/71‑1 (MQ=255)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTa                <  1:2529341/71‑1 (MQ=255)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTa                <  1:442442/71‑1 (MQ=255)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTa                <  1:2175257/71‑1 (MQ=255)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTa                <  1:1386965/71‑1 (MQ=255)
                     tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTa                <  1:841656/71‑1 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAAtac            >  1:1335252/1‑69 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAAt              >  1:451404/1‑69 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2921597/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2395666/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:722038/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2805100/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:726882/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:1028102/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:1913440/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:1987658/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2152451/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2432432/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:14692/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2445445/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:246744/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2499886/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:2611001/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc            >  1:1359668/1‑71 (MQ=255)
                         gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATc             >  1:2791937/1‑70 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:2030587/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:835100/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1539229/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1641799/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1453673/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1689092/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1855474/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1033933/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:709326/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1938681/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:1952484/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:2283320/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:46130/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:2371347/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:316375/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:2857113/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:2639606/71‑1 (MQ=255)
                                   ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca  <  1:2734387/71‑1 (MQ=255)
                                                |                                                         
TGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCA  >  minE/1763508‑1763613

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A