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 F17 I0 R2
|
159 |
90.8 |
4763082 |
92.7% |
4415377 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,625,149 |
G→A |
14.3% |
R16H (CGT→CAT) |
ftsX → |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,625,149 | 0 | G | A | 14.3%
| 149.7
/ 15.4
| 56 | R16H (CGT→CAT) | ftsX | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (26/22); new base A (2/6); total (28/28) |
| Fisher's exact test for biased strand distribution p-value = 2.52e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.48e-01 |
CACTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCAAAACG > minE/2625081‑2625212
|
cACTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGt > 1:978401/1‑70 (MQ=255)
aCTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCt > 1:4343981/1‑71 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:3183533/69‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:4594076/69‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:4488780/69‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:4339193/69‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:2537370/69‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGAt > 1:1282369/1‑71 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGAt > 1:1332022/1‑71 (MQ=255)
aTGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATc > 1:4346075/1‑70 (MQ=255)
gAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCt > 1:650619/1‑62 (MQ=255)
ggCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTcc > 1:1659923/1‑71 (MQ=255)
gCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTcc < 1:50498/70‑1 (MQ=255)
gTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGt > 1:3642010/1‑70 (MQ=255)
gggCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTaaa > 1:1080442/1‑71 (MQ=255)
gggCCATGAATAAGCGCGATGCAATAAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCg > 1:4426267/1‑67 (MQ=255)
tGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTc < 1:4063123/48‑1 (MQ=255)
tGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtc > 1:4225322/1‑71 (MQ=255)
tGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggt > 1:4544801/1‑70 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCtt > 1:695010/1‑48 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGAt > 1:2232247/1‑51 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGAt > 1:1893321/1‑51 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGAt > 1:831051/1‑51 (MQ=255)
aTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAATCGGTcggc < 1:405395/71‑1 (MQ=255)
tAAGCGCGATGCAATCAATCATATTCGGCAGTTTggcgggcg < 1:2629866/42‑1 (MQ=255)
aGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTc > 1:2054804/1‑42 (MQ=255)
aGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTc > 1:1344516/1‑42 (MQ=255)
aGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCggcggc > 1:4150845/1‑71 (MQ=255)
aGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCggcggc > 1:1189390/1‑71 (MQ=255)
gcgcGATGCAATCAATCATATTCAGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCt < 1:1956514/71‑1 (MQ=255)
gcgATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCa < 1:2968556/71‑1 (MQ=255)
caatcaatCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAc < 1:4405058/71‑1 (MQ=255)
caatcaatCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAc < 1:3235697/71‑1 (MQ=255)
caatcaatCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAc < 1:1707400/71‑1 (MQ=255)
caatcaatCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAc < 1:3861646/71‑1 (MQ=255)
caatcaatCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAc < 1:1417346/71‑1 (MQ=255)
aatcaatcATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcg < 1:141899/71‑1 (MQ=255)
atcaatcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAt < 1:1510537/49‑1 (MQ=255)
atcaatcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcgg < 1:1300679/71‑1 (MQ=255)
atcaatcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcgg > 1:3482416/1‑71 (MQ=255)
atatTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGt < 1:4046702/71‑1 (MQ=255)
tatTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAt < 1:1361080/41‑1 (MQ=255)
tatTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGt > 1:2110119/1‑70 (MQ=255)
tatTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGt > 1:2734930/1‑70 (MQ=255)
tatTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTaa < 1:708199/39‑1 (MQ=255)
tatTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTaa < 1:22238/39‑1 (MQ=255)
tatTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTaa < 1:2645296/39‑1 (MQ=255)
ttCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcg < 1:2512835/41‑1 (MQ=255)
ttCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGTCGGCGGTCGTaa > 1:3626656/1‑70 (MQ=255)
ttCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTaa > 1:4499019/1‑70 (MQ=255)
tCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcg < 1:1309142/40‑1 (MQ=255)
cGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACg < 1:2528308/70‑1 (MQ=255)
tttGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCg < 1:2856683/49‑1 (MQ=255)
tttGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCg < 1:1536876/49‑1 (MQ=255)
ttGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCaaaa > 1:4526598/1‑71 (MQ=255)
ttGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCaaaa > 1:4361211/1‑71 (MQ=255)
tGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCaaaa > 1:1338447/1‑70 (MQ=255)
gcgggcgTCTTGATCGCTTCCGTAAATCGGTCGACGGCTCAGGCGACGGCGGTCGTAACGCACCAAAAcg < 1:3435355/70‑1 (MQ=255)
|
CACTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCAAAACG > minE/2625081‑2625212
|
| 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
