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 R2 489 0.0 1652083 58.3% 963164 55.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 2,558,553 A→G E252E (GAA→GAG)  amiA → N‑acetylmuramoyl‑l‑alanine amidase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,558,5530AG100.0% 684.0 / NA 231E252E (GAA→GAG) amiAN‑acetylmuramoyl‑l‑alanine amidase I
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (231/0);  total (231/0)

Only 100 of 231 total aligned reads displayed.

GTTTATCACCAACCCGGAAGAAGAACGGCTGTTAGG  >  W3110S.gb/2558529‑2558564
                        |           
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:304012/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:531688/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:506180/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:491999/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:487654/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:451362/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:429838/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:414485/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:384854/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:352877/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:340026/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:324244/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:307948/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:590281/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:293481/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:277315/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:262944/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:241846/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:218279/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:211951/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:194451/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:165267/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1649513/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1643461/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1630329/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:778064/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:969765/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:956106/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:949158/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:928230/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:920012/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:894514/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:880397/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:856875/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:84346/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:831432/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:826134/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:817591/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1625104/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:766786/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:756617/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:725075/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:69364/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:692178/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:661981/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:651592/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:635526/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:62108/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:616738/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:613823/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1125806/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1004192/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1281963/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1274289/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1269492/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1235015/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1225898/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:121424/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:119543/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1172813/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:115775/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1148476/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1134383/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1290481/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:11122/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1102573/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1095642/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1087255/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1083168/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1079851/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1066994/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:105617/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1041022/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1033167/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1021117/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1491615/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1620213/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1609053/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1594521/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1581010/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1574795/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1570530/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1566010/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:155260/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1549498/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1520966/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1510377/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:132254/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1466621/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1431015/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1412053/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1404193/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1389655/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1363526/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1348348/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:133564/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1329909/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAgg  >  1:1325349/1‑36 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAg   >  1:1198162/1‑35 (MQ=255)
gTTTATCACCAACCCGGAAGAAGAGCGGCTGTTAg   >  1:158662/1‑35 (MQ=255)
                        |           
GTTTATCACCAACCCGGAAGAAGAACGGCTGTTAGG  >  W3110S.gb/2558529‑2558564

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A