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 |
2,801,130 |
C→T |
25.4% |
S196S (AGC→AGT) |
yjbN → |
tRNA‑dihydrouridine synthase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,801,130 | 0 | C | T | 25.4%
| 100.4
/ 27.7
| 82 | S196S (AGC→AGT) | yjbN | tRNA‑dihydrouridine synthase A |
| Reads supporting (aligned to +/- strand): ref base C (39/22); new base T (10/11); total (49/33) |
| Fisher's exact test for biased strand distribution p-value = 2.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GCAAAGGCGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACTT > minE/2801069‑2801195
|
gCAAAGGTGAGTGTTAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:1629207/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGtcc > 1:2139107/1‑64 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:904947/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:2336126/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:2029360/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:3146562/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:1680356/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:1598756/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:1483991/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCgaaa > 1:8806/1‑68 (MQ=255)
gCAAAGGTGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTCCTGGGTTAAGTCCgaaa > 1:1541880/1‑68 (MQ=255)
tgAGTGTGAGATTTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:1974096/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGTGTTAAGTCCGAAAGAAAACCg < 1:812852/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:29659/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:789172/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:3106924/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:2159748/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:1221878/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:837290/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:3246985/68‑1 (MQ=255)
tgAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:3320278/68‑1 (MQ=255)
tgAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:1818830/1‑66 (MQ=255)
tgAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:199643/1‑66 (MQ=255)
tgAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:1814857/1‑66 (MQ=255)
tgAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:1646999/1‑66 (MQ=255)
tgAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:1327805/1‑66 (MQ=255)
tgAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:3399036/1‑66 (MQ=255)
tgAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:1574665/1‑66 (MQ=255)
catcatCCACGCACGTAAAGCCTGGCTTTCGGGGTTACGCCCGAAAGAAAACCGTGAAATCCcgccgc > 1:503203/1‑68 (MQ=255)
catcatCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGa > 1:3128552/1‑57 (MQ=255)
catcatCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCcgccgc > 1:2072228/1‑68 (MQ=255)
catcatCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCcgccgc > 1:1189686/1‑68 (MQ=255)
catcatCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCcgccgc > 1:869426/1‑68 (MQ=255)
catcatCAACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCcgccgc > 1:3330604/1‑68 (MQ=255)
catcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCcgccgc < 1:3076096/65‑1 (MQ=255)
atcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt > 1:1298103/1‑69 (MQ=255)
atcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt < 1:2716586/69‑1 (MQ=255)
atcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt < 1:235353/69‑1 (MQ=255)
atcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt > 1:2336674/1‑69 (MQ=255)
atcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt > 1:4444/1‑69 (MQ=255)
atcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt < 1:345671/69‑1 (MQ=255)
atcCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt < 1:894102/69‑1 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCgaaaga > 1:2270166/1‑41 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCg > 1:2345056/1‑64 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCg > 1:2506274/1‑64 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCg > 1:2473255/1‑64 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCg > 1:124327/1‑64 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCg > 1:1452942/1‑64 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCg > 1:1529714/1‑64 (MQ=255)
cacgcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCg > 1:1689932/1‑64 (MQ=255)
gcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcg < 1:1146362/69‑1 (MQ=255)
gcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcg < 1:2763306/69‑1 (MQ=255)
gcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcg < 1:667225/69‑1 (MQ=255)
gcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcg < 1:1090979/69‑1 (MQ=255)
gcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcg < 1:1594360/69‑1 (MQ=255)
gcacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcg < 1:3178197/69‑1 (MQ=255)
cacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcgc > 1:1745841/1‑69 (MQ=255)
cacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcgc > 1:2078953/1‑69 (MQ=255)
cacgTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCcgc > 1:301857/1‑69 (MQ=255)
tAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGAt < 1:2903919/58‑1 (MQ=255)
aGCCTGGCTTTCTGGGTTAAGTCCGAAAGAAAACCg < 1:1454968/36‑1 (MQ=38)
gCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTa < 1:2505829/68‑1 (MQ=255)
gCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTa < 1:1503254/68‑1 (MQ=255)
cTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCa < 1:3168713/69‑1 (MQ=255)
ggTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGt < 1:1473910/68‑1 (MQ=255)
ggTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGt < 1:2485308/68‑1 (MQ=255)
ggTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTg < 1:1616277/69‑1 (MQ=255)
gTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTg < 1:1432987/68‑1 (MQ=255)
gTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTg < 1:465513/68‑1 (MQ=255)
tAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTg < 1:515709/66‑1 (MQ=255)
aaGCCCGAAAGAAAACCGTGATATCCCGCCGCTCGAt < 1:3296632/37‑1 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:1551725/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:2375659/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:2624876/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:714008/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:2875394/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:358763/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:3386255/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:228269/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:1767680/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:2258923/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:3150335/1‑69 (MQ=255)
aaGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACtt > 1:1938248/1‑69 (MQ=255)
|
GCAAAGGCGAGTGTGAGATGTTCATCATCCACGCACGTAAAGCCTGGCTTTCGGGGTTAAGCCCGAAAGAAAACCGTGAAATCCCGCCGCTCGATTATCCGCGTGTGTATCAACTGAAGCGTGACTT > minE/2801069‑2801195
|
| 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
