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 |
2,243,829 |
A→G |
47.1% |
R281R (CGT→CGC) |
hemE ← |
uroporphyrinogen decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,243,829 | 0 | A | G | 47.1%
| 2.4
/ 58.2
| 68 | R281R (CGT→CGC) | hemE | uroporphyrinogen decarboxylase |
| Reads supporting (aligned to +/- strand): ref base A (11/25); new base G (28/4); total (39/29) |
| Fisher's exact test for biased strand distribution p-value = 1.97e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.06e-01 |
GGCAGGCGGCGCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGC > minE/2243766‑2243894
|
ggCAGGCGGCGCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACAcggc < 1:1587531/68‑1 (MQ=255)
ggCAGGCGGCGCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACAcggc < 1:304927/68‑1 (MQ=255)
gcggcgCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGgcgcg < 1:2094781/69‑1 (MQ=255)
gcggcgCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGgcgcg < 1:2381688/69‑1 (MQ=255)
gcggcgCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGgcgcg < 1:367558/69‑1 (MQ=255)
cggcgCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGgcgcgc < 1:31651/69‑1 (MQ=255)
gTACAGCATCGACGTATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:1577796/69‑1 (MQ=255)
gTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:1020683/69‑1 (MQ=255)
gTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:1944686/69‑1 (MQ=255)
gTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:2846088/69‑1 (MQ=255)
gTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:2904766/69‑1 (MQ=255)
gTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:131837/69‑1 (MQ=255)
tACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:2477305/68‑1 (MQ=255)
cAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACAcggcgg > 1:2278626/1‑55 (MQ=255)
cAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGAt > 1:305978/1‑69 (MQ=255)
cAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGAt > 1:389672/1‑69 (MQ=255)
cAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGAt > 1:671082/1‑69 (MQ=255)
gACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGTATCGGCGATGTCCGtt > 1:1002574/1‑69 (MQ=255)
gACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGtt > 1:3020971/1‑69 (MQ=255)
gACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGtt > 1:2922751/1‑69 (MQ=255)
gACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGAGATGTCCGtt > 1:1136189/1‑69 (MQ=255)
ggATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCTCATCGGCGATGTCCGTTGTc < 1:1867595/69‑1 (MQ=255)
ggATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTc < 1:2008485/69‑1 (MQ=255)
ggATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTc < 1:2252008/69‑1 (MQ=255)
tCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGc < 1:2546315/53‑1 (MQ=255)
cATATTACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc < 1:2939235/69‑1 (MQ=255)
cATATTACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc < 1:2307109/69‑1 (MQ=255)
cATATTACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc < 1:1432906/69‑1 (MQ=255)
cATATTACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc < 1:1960818/69‑1 (MQ=255)
ttACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCa > 1:522029/1‑62 (MQ=255)
ttACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:37280/1‑63 (MQ=255)
ttACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:2510817/1‑63 (MQ=255)
tACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:1154989/1‑62 (MQ=255)
tACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:2972610/1‑62 (MQ=255)
tACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:2865540/1‑62 (MQ=255)
tACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:2837188/1‑62 (MQ=255)
tACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:3179062/1‑62 (MQ=255)
tACCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAgat > 1:1804279/1‑67 (MQ=255)
tACCCTGCAGCGCGACTTTATTGCCAACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:1828829/1‑62 (MQ=255)
tACCATGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAg > 1:1699582/1‑62 (MQ=255)
acgcTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:3115750/4‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:3267767/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:3277060/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:1328867/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:359334/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:1245248/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:118702/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:599948/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:1550771/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:783425/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:2970677/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:802005/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:2668094/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:2342037/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:2017156/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:2472810/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:2426170/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:203976/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCCACGCGACGGCGCGCATAGGCGATGTCCGTTGTCCAGTc > 1:900812/1‑63 (MQ=255)
aCCCTGCAGCGCGACTTTATTGCCAACGCGACGGCGCGCATCGGCGATGTCCGTTGTCCAGTc > 1:1265560/1‑63 (MQ=255)
cgACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGc < 1:2117178/69‑1 (MQ=255)
cgACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGc < 1:2698631/69‑1 (MQ=255)
tGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGtt < 1:2956700/68‑1 (MQ=255)
tGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGtt < 1:2087235/68‑1 (MQ=255)
tGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGtt < 1:856205/68‑1 (MQ=255)
tGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGtt < 1:2880636/68‑1 (MQ=255)
tGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGtt < 1:2944430/68‑1 (MQ=255)
gCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGtt < 1:2112056/67‑1 (MQ=255)
cacaCGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGc > 1:2828428/1‑69 (MQ=255)
cacaCGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGc > 1:2627644/1‑69 (MQ=255)
cacaCGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGc > 1:865332/1‑69 (MQ=255)
cacaCGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGc > 1:2380158/1‑69 (MQ=255)
cacaCGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGc > 1:943765/1‑69 (MQ=255)
|
GGCAGGCGGCGCGTACAGCATCGACGGATCCATATTACCCTGCAACGCGACTTTATTGCCCACACGGCGGCGCGCATCGGCGATGTCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGC > minE/2243766‑2243894
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
