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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,231,400 |
A→G |
58.0% |
Y452Y (TAT→TAC) |
ptrB ← |
protease II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,231,400 | 0 | A | G | 58.0%
| 10.3
/ 24.4
| 38 | Y452Y (TAT→TAC) | ptrB | protease II |
| Reads supporting (aligned to +/- strand): ref base A (4/12); new base G (6/16); total (10/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.58e-01 |
CACGATCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCGG > minE/1231336‑1231468
|
cACGATCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGc < 1:97304/69‑1 (MQ=255)
cACGATCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGc < 1:2609969/69‑1 (MQ=255)
cACGATCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGc < 1:2918274/69‑1 (MQ=255)
cACGATCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGc < 1:3115879/69‑1 (MQ=255)
cACGATCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGc < 1:3288474/69‑1 (MQ=255)
aTCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGCCATa < 1:337034/69‑1 (MQ=255)
aTCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGCCATa < 1:1248489/69‑1 (MQ=255)
aTCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGCCATa < 1:2215112/69‑1 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCTCCGTAAGAACCGTAGCCATACACCAGCagc < 1:2243587/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCTCCGTAAGAACCGTAGCCATACACCAGCagc < 1:2247602/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:527206/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:3373490/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:545500/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:3200075/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:3122678/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:3031543/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:585632/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:1045844/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:2788418/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:112743/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:1509142/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:2140706/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:1697140/69‑3 (MQ=255)
cTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCGTAGCCATACACCAGCagc < 1:1775860/69‑3 (MQ=255)
aaTACTTGCGCCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCg > 1:3040941/1‑69 (MQ=255)
aaTACTTGCGCCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCg > 1:3378289/1‑69 (MQ=255)
gcCGTAAGAACCGTAGCCATACACCAGCAGCGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGATa > 1:2976254/1‑66 (MQ=255)
gcCGTAAGAACCGTAGCCATACACCAGCAGCGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGATAg > 1:1248391/1‑67 (MQ=255)
gcCGTAAGAACCGTAGCCATACACCAGCAGCGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGATAg > 1:1605175/1‑67 (MQ=255)
gcCGTAAGAACCGTAGCCATACACCAGCAGCGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGATAg > 1:3015686/1‑67 (MQ=255)
gcCGTAAGAACCGTAGCCATACACCAGCAGCGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGATAg > 1:3411499/1‑67 (MQ=255)
gcCGTAAGAACCGTAGCCATACACCAGCAGCGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGATAg > 1:2486249/1‑67 (MQ=255)
gcCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAg < 1:1999210/67‑1 (MQ=255)
gcCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAg < 1:539053/67‑1 (MQ=255)
gcCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAg < 1:2778518/67‑1 (MQ=255)
gcCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAg < 1:2638182/67‑1 (MQ=255)
aGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGCCCAACGa > 1:2223210/1‑69 (MQ=255)
aGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGa > 1:1955943/1‑69 (MQ=255)
aTAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCgg < 1:313748/69‑1 (MQ=255)
aTAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCgg < 1:2012127/69‑1 (MQ=255)
aTAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCgg < 1:215539/69‑1 (MQ=255)
aTAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCgg < 1:2875003/69‑1 (MQ=255)
aTAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCgg < 1:22506/69‑1 (MQ=255)
aTAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCgg < 1:563996/69‑1 (MQ=255)
aTAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCgg < 1:923725/69‑1 (MQ=255)
|
CACGATCTAACAAACTCAAGCGGCTAAAACTGAAATCGGCATCAATACTTGCGCCGTAAGAACCATAGCCATACACCAGCAACGGGTTGTGTCCTTTGCGAAAATGTTTGCGATGGTAGACCAACGAAACCGG > minE/1231336‑1231468
|
| 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
