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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,591,162 |
C→A |
28.4% |
V112V (GTG→GTT) |
hsdR ← |
endonuclease R |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,591,162 | 0 | C | A | 28.4%
| 88.9
/ 20.6
| 42 | V112V (GTG→GTT) | hsdR | endonuclease R |
| Reads supporting (aligned to +/- strand): ref base C (20/10); new base A (4/8); total (24/18) |
| Fisher's exact test for biased strand distribution p-value = 8.36e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCAGACAGCCAGGCGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACAAAGGC > W3110S.gb/4591093‑4591227
|
ccAGACAGCCAGGCGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCa > 1:488740/1‑71 (MQ=255)
ccAGACAGCCAGGCGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCa > 1:2503812/1‑71 (MQ=255)
ccAGACAGCCAGGCGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCa > 1:3437582/1‑71 (MQ=255)
aGACAGCCAGGCGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCAc > 1:2270758/1‑70 (MQ=255)
aCAGCCAGGCGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCAcc < 1:1696464/69‑1 (MQ=255)
cGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTAcc < 1:3025217/71‑1 (MQ=255)
cGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTAcc < 1:1515604/71‑1 (MQ=255)
cGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTAcc < 1:4080638/71‑1 (MQ=255)
ggAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTAcc < 1:2997018/70‑1 (MQ=255)
aCCCGAGTCGC‑‑GCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTACCAATgcg < 1:2371105/71‑1 (MQ=255)
ccGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTACCAATgcg < 1:938359/71‑1 (MQ=255)
cGAGTCGCAGGCACATCTGGGCATCGTTGAGATGGTTATGATATTCGTGCACCGCCTGGTTACCAATgcgg > 1:3654361/1‑71 (MQ=255)
gAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACAAATgcg > 1:3298995/1‑69 (MQ=255)
gCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAAt < 1:1664533/71‑1 (MQ=255)
acaTCTGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTtgtg > 1:239063/1‑70 (MQ=255)
acaTCTGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGa < 1:429191/71‑1 (MQ=255)
aTCTGGGCATCGTTGAGATCGTTATGATATTCGTGCTCCGCCTGGTTACCAATGCGGCGTAATTTGTCaaa < 1:1383360/71‑1 (MQ=255)
tCTGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGaaa < 1:3076129/70‑1 (MQ=255)
tCTGGGCATCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTACCAATGCGGCGTAATTTGTGaaa > 1:1286594/1‑70 (MQ=255)
tGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCaa > 1:1376282/1‑49 (MQ=255)
tGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCaa > 1:3132352/1‑49 (MQ=255)
ggCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTTAAATa < 1:3795082/68‑1 (MQ=255)
tCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACa > 1:2119467/1‑66 (MQ=255)
tCGTTGAGATCGTTATGATATTCGTGAACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACagagag < 1:3185262/71‑1 (MQ=255)
gTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATgc > 1:2413182/1‑44 (MQ=255)
gTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGaaa > 1:2899106/1‑60 (MQ=255)
gTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGaaa > 1:1552763/1‑60 (MQ=255)
gTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGaaa > 1:239704/1‑60 (MQ=255)
tGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCaa > 1:2137066/1‑39 (MQ=255)
tATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACagagag < 1:3323712/58‑1 (MQ=255)
tATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACagagag < 1:3153344/58‑1 (MQ=255)
gATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATa < 1:3081283/48‑1 (MQ=255)
atatTCGTGAACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATcaaca < 1:2253538/70‑1 (MQ=255)
tatTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACaga > 1:1409983/1‑50 (MQ=255)
tatTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACaaa < 1:615062/71‑1 (MQ=255)
atTCGTGAACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATcaa > 1:3779138/1‑66 (MQ=255)
atTCGTGAACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATcaa > 1:522514/1‑66 (MQ=255)
cGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACAAAGGc > 1:2966928/1‑70 (MQ=255)
cGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACAAAGGc > 1:98815/1‑70 (MQ=255)
cGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACAAAGGc > 1:3272313/1‑70 (MQ=255)
cGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACAAAGGc > 1:2472591/1‑70 (MQ=255)
cGTGAACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACAAAGGc > 1:3484238/1‑70 (MQ=255)
|
CCAGACAGCCAGGCGGAACCCGAGTCGCAGGCACATCTGGGCATCGTTGAGATCGTTATGATATTCGTGCACCGCCTGGTTACCAATGCGGCGTAATTTGTGAAATACAGAGAGGATGTTGTCATCAACAAAGGC > W3110S.gb/4591093‑4591227
|
| 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
