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 I1 R1 826 0.0 88706 74.7% 66263 57.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 871,017 +A coding (1185/1539 nt) yliB → predicted peptide transporter subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb871,0141.A96.2% 40.1 / ‑5.9 26G394G (GGT→GGA) yliBpredicted peptide transporter subunit
Reads supporting (aligned to +/- strand):  ref base . (0/0);  major base A (0/25);  minor base G (0/1);  total (0/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01

TGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGT‑AAAGGGCAAAAAGAGAGCGGC  >  W3110S.gb/870975‑871035
                                        |                     
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTGAAAGGGCAAAAAGAGAgcggc  <  1:39156/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:52190/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:82106/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:75430/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:73921/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:73397/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:72344/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:70811/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:68302/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:66259/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:63479/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:5942/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:57988/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:10708/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:51132/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:48091/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:36097/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:36011/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:32732/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:28384/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:26993/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:2396/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:20080/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:19060/62‑1 (MQ=255)
tGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:12781/62‑1 (MQ=255)
 gCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGTAAAAGGGCAAAAAGAGAgcggc  <  1:57865/61‑1 (MQ=255)
                                        |                     
TGCGATGGATGCCGGACAGCGGGCGGCAGAAGTTGAAGGT‑AAAGGGCAAAAAGAGAGCGGC  >  W3110S.gb/870975‑871035

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A