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 |
552,054 |
C→T |
53.0% |
S490S (TCG→TCA) |
ybiW ← |
predicted pyruvate formate lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 552,054 | 0 | C | T | 53.0%
| 1.6
/ 56.3
| 66 | S490S (TCG→TCA) | ybiW | predicted pyruvate formate lyase |
| Reads supporting (aligned to +/- strand): ref base C (9/22); new base T (15/20); total (24/42) |
| Fisher's exact test for biased strand distribution p-value = 3.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAGTAACGGATTTGCGTATCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCAGCGCC > minE/551992‑552120
|
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:1107556/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:2012645/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:1039616/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:2722008/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:3096165/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:3110946/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:3153484/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:382792/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:458059/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:1443442/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:713207/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:1132488/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:1176087/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:732849/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:753394/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:1251486/69‑1 (MQ=255)
tagtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:868397/69‑1 (MQ=255)
agtaACGTATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:1567453/68‑1 (MQ=255)
agtaACGGATTTGCGTATCCCATGCGTCCATTACTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:2004455/68‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCTACAACGCTTTTTCTTGTGGCAgg < 1:1426253/69‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg < 1:1558840/69‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg < 1:2852789/69‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg < 1:564404/69‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg < 1:2630095/69‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg < 1:1986199/69‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg < 1:574615/69‑1 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg > 1:2579782/1‑69 (MQ=255)
tCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAgg < 1:887608/69‑1 (MQ=255)
cATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGcc > 1:2484640/1‑69 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGTTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:1116937/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCtg > 1:89362/1‑69 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCtg > 1:2946470/1‑69 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:2302426/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:3219900/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:1686848/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:3324127/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:336945/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:2981978/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:2014983/68‑1 (MQ=255)
aCTTCATCGAAGTTGTTGAAGTTACCCGCTGACAAc < 1:464646/36‑1 (MQ=37)
cTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCt < 1:1187773/67‑1 (MQ=255)
cGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcat < 1:1858553/69‑1 (MQ=255)
cGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcat < 1:1597308/69‑1 (MQ=255)
cGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcat < 1:467102/69‑1 (MQ=255)
cGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcat < 1:701708/69‑1 (MQ=255)
gAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcat < 1:3144609/68‑1 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACt > 1:923717/1‑48 (MQ=39)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACt > 1:2005248/1‑48 (MQ=39)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:3110072/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:3406655/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:185710/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:2484537/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:492587/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:1477340/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:1435472/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:2006787/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacga > 1:2539899/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacg > 1:1687779/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacg > 1:158013/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGcatcacg > 1:1512812/1‑66 (MQ=255)
ttgttgAAGTTACCCGCTGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCACGc > 1:1637841/1‑69 (MQ=255)
aCCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCa > 1:1900352/1‑68 (MQ=255)
aCCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCAg > 1:326349/1‑69 (MQ=255)
aCCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCAg > 1:1278404/1‑69 (MQ=255)
aCCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCAg > 1:1291757/1‑69 (MQ=255)
aCCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCAg > 1:2668658/1‑69 (MQ=255)
ccGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCAGcgcc > 1:2319051/1‑68 (MQ=255)
|
TAGTAACGGATTTGCGTATCCCACGCGTCCATCACTTCATCGAAGTTGTTGAAGTTACCTGCCGACAACGCTTTTTCTTGTGGCAGGAACACTTTGCCGCTGGTGGCATCATGCCCGCCTTCCAGCGCC > minE/551992‑552120
|
| 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
