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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,636,243 |
G→A |
10.2% |
intergenic (+63/‑35) |
ugpB → / → ugpA |
glycerol‑3‑phosphate transporter subunit/glycerol‑3‑phosphate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,636,243 | 0 | G | A | 10.2%
| 134.8
/ 5.6
| 49 | intergenic (+63/‑35) | ugpB/ugpA | glycerol‑3‑phosphate transporter subunit/glycerol‑3‑phosphate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (19/25); new base A (2/3); total (21/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.28e-01 |
AATCAGTGTAATGTCGGATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGCTCGCGCTGG > minE/2636179‑2636313
|
aaTCAGTGTAATGTCGGATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATaagcgaagcg > 1:2163439/1‑70 (MQ=255)
cAGTGTAATGTCGGATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATc > 1:3620971/1‑71 (MQ=255)
cAGTGTAATGTCGGATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATc > 1:1708105/1‑71 (MQ=255)
atgcgacgctggcgcgtcttatcaggcctacacgctgcgatttTGTAGGCCGGATAAGCAAAGCGCATc < 1:11235‑M2/26‑1 (MQ=255)
atgcgacgctgacgcgtcttatctggcctacacgctgcgatttTGTAGGCCGGATAAGCAAAGCGCATCCg > 1:1996752‑M2/44‑71 (MQ=255)
tAATGTCGGATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGca < 1:771700/71‑1 (MQ=255)
cgctggcgcgtcttatcaggcctacacgctgcgatttTGTAGGCCGGATAAGCAAAGCGCATCCGgcacg > 1:1249894‑M2/38‑69 (MQ=255)
tCGGATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGtt < 1:2897187/71‑1 (MQ=255)
gATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAg > 1:3150116/1‑71 (MQ=255)
aTGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAgg < 1:1114380/71‑1 (MQ=255)
gCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCAt < 1:2670788/54‑1 (MQ=255)
gTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAgg < 1:3476419/67‑1 (MQ=255)
ttatcaggcctacgcgctgcgatttTGTAGGCCGGATAAGCAAAGCGCAt < 1:2102570‑M2/25‑1 (MQ=255)
ttCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCa > 1:3249574/1‑63 (MQ=255)
tCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAGGCGCATcc > 1:1044490/1‑51 (MQ=255)
tCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAAc > 1:3330253/1‑71 (MQ=255)
tCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAAc > 1:3371114/1‑71 (MQ=255)
tcaggcctacgcgctgcgatttTGTAGGCCGGATAAGCAAAGCGCa < 1:165201‑M2/24‑1 (MQ=255)
cTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCa < 1:445078/59‑1 (MQ=255)
cTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGTAATTaa < 1:360485/67‑1 (MQ=255)
cTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTaa < 1:1258658/67‑1 (MQ=255)
cTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTaa < 1:363219/67‑1 (MQ=255)
tATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGaa > 1:2098829/1‑61 (MQ=255)
gACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGtca > 1:2819246/1‑71 (MQ=255)
aCCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGtcat > 1:2887644/1‑71 (MQ=255)
aCCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGtc < 1:2624337/69‑1 (MQ=255)
cTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTaa > 1:2069101/1‑57 (MQ=255)
cTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGtcatca < 1:261595/71‑1 (MQ=255)
cTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGtcatca < 1:2084227/71‑1 (MQ=255)
gCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTcatcat < 1:441376/69‑1 (MQ=255)
gCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCatcatc < 1:3188620/70‑1 (MQ=255)
aTCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGtcat > 1:1123209/1‑64 (MQ=255)
aTCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGtcat > 1:1496474/1‑64 (MQ=255)
aTCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTcatcat < 1:2103294/67‑1 (MQ=255)
gcgTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTaa > 1:856756/1‑49 (MQ=255)
gcgTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGt < 1:2579761/53‑1 (MQ=255)
gcgTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTaa < 1:3025269/55‑1 (MQ=255)
cgTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCg < 1:384229/71‑1 (MQ=255)
gtgtAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCg < 1:1624514/70‑1 (MQ=255)
gtAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTaa > 1:3090183/1‑51 (MQ=255)
gtAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGgtg > 1:2323368/1‑71 (MQ=255)
tAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGgtgt < 1:3572628/71‑1 (MQ=255)
ggCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGaa < 1:3855948/38‑1 (MQ=255)
gCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATg < 1:798182/49‑1 (MQ=255)
ccGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCatcatc < 1:3908814/56‑1 (MQ=255)
ccGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCg > 1:3599549/1‑71 (MQ=255)
cGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCg > 1:898029/1‑70 (MQ=255)
cGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGc > 1:725980/1‑71 (MQ=255)
ggATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGCt < 1:3427387/71‑1 (MQ=255)
gATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCgg < 1:1530378/61‑1 (MQ=255)
gaagcgCATCCGGCACAGTTCAGGAATTAACCGTAATGtca < 1:1040693/41‑1 (MQ=255)
gaagcgCATCCGGCACAGTTCAGGAATTAACCGTAATGt < 1:899027/39‑1 (MQ=255)
gaagcgCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGCTCGCgctgg < 1:143449/71‑1 (MQ=255)
gaagcgCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGCTCGCgctgg > 1:3054846/1‑71 (MQ=255)
gaagcgCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGCTCGCgctgg > 1:2913820/1‑71 (MQ=255)
gaagcgCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGCTCGCgctgg > 1:2211473/1‑71 (MQ=255)
|
AATCAGTGTAATGTCGGATGCGTTTCGCTTATCTGACCTGGCATCGCGTGTAGGCCGGATAAGCGAAGCGCATCCGGCACAGTTCAGGAATTAACCGTAATGTCATCATCCCGTCCGGTGTTCCGCTCGCGCTGG > minE/2636179‑2636313
|
| 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
