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
A5 F28 I3 R1 375 42.1 2927644 71.4% 2090337 57.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 266,076 A→G V39A (GTG→GCG)  yafY ← predicted DNA‑binding transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb266,0760AG100.0% 325.2 / NA 95V39A (GTG→GCG) yafYpredicted DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (39/56);  total (39/56)

ATCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACACACCAAACTCAGCGGCAAGCTTACGCACACTCA  >  W3110S.gb/266034‑266109
                                          |                                 
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCaa                 >  1:140857/1‑61 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCa                  >  1:1680039/1‑60 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2026958/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:559411/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1807062/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1823853/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:545583/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2447544/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2427419/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2360271/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:492212/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2580368/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:234029/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2032087/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2115526/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2127835/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:423521/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:33664/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:382352/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:364316/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2290275/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2327236/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:621982/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1039796/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1169504/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2579866/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:858418/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1239774/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1307018/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:789225/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1410653/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:704937/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2532977/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:2736994/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:150799/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:156119/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAg                >  1:1544410/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGACAAg                >  1:1785650/1‑62 (MQ=255)
aTCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCAACGCACCAAACTCAGCGGCaa                 >  1:1069986/1‑61 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:2500577/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:1466891/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:1091257/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:2169400/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:1689353/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:1704682/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:2078815/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:821923/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:1726294/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:773615/62‑1 (MQ=255)
 tCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:1978438/62‑1 (MQ=255)
           aCGAAAATCACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGc               <  1:372690/52‑1 (MQ=255)
                   cACGCCGCAGCGTTCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1978929/57‑1 (MQ=25)
                   cACGCCGCAGCGTGCTCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1859705/57‑1 (MQ=25)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:417849/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:443277/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:507722/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:333297/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:511278/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:306585/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:967089/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2776719/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:580750/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:68116/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:702325/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:886842/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1008266/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2530757/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1032290/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1224824/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1237549/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1327151/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1333997/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:142776/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1462154/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1495693/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:158453/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1618592/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1722162/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:183684/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1894335/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2015241/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2027443/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2138526/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2155503/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2246078/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2247977/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2280484/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2332636/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2398359/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2438302/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2456390/57‑1 (MQ=255)
                   cACGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:2710205/57‑1 (MQ=255)
                    aCGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1948810/56‑1 (MQ=255)
                    aCGCCGCAGCGTGCGCACCGACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:1253510/56‑1 (MQ=255)
                                       gACGCACCAAACTCAGCGGCAAGCTTACGCACACTCa  <  1:505395/37‑1 (MQ=255)
                                          |                                 
ATCAGCCGCTCACGAAAATCACGCCGCAGCGTGCGCACCGACACACCAAACTCAGCGGCAAGCTTACGCACACTCA  >  W3110S.gb/266034‑266109

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A