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
A6 F28 I1 R2 90 19.5 1203533 67.3% 809977 57.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 2,381,384 +A intergenic (‑104/+37) rmuC ← / ← udp predicted recombination limiting protein/uridine phosphorylase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,381,3801.A100.0% 42.6 / NA 14intergenic (‑100/+41)rmuC/udppredicted recombination limiting protein/uridine phosphorylase
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base A (0/14);  total (0/14)

AGGCGCTACGCAAAAATAC‑AAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAT  >  minE/2381362‑2381421
                   |                                         
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCATACAGGAGAAGAGAAt  <  1:1062104/61‑1 (MQ=38)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:1054785/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:1056878/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:1058808/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:1190160/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:183981/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:19109/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:206061/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:420127/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:8038/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:827543/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:920935/61‑1 (MQ=255)
aGGCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:97535/61‑1 (MQ=255)
 ggCGCTACGCAAAAATACAAAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAt  <  1:848677/60‑1 (MQ=38)
                   |                                         
AGGCGCTACGCAAAAATAC‑AAAAGGCCGAACGCGTCGGCCTTCAGACAGGAGAAGAGAAT  >  minE/2381362‑2381421

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