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 |
1,545,006 |
A→G |
100% |
V239A (GTC→GCC) |
yfcY ← |
beta‑ketoacyl‑CoA thiolase, anaerobic, subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,545,006 | 0 | A | G | 77.2%
| 87.5
/ 16.5
| 65 | V239A (GTC→GCC) | yfcY | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit |
| Reads supporting (aligned to +/- strand): ref base A (14/1); new base G (21/29); total (35/30) |
| Fisher's exact test for biased strand distribution p-value = 3.77e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CGGCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAC > minE/1544968‑1545071
|
tagCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:1586503/66‑1 (MQ=255)
cagCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:3327845/66‑1 (MQ=255)
cagCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:825358/66‑1 (MQ=255)
cagCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:1239470/66‑1 (MQ=255)
cagCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:1824042/66‑1 (MQ=255)
agCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:419728/66‑1 (MQ=255)
agCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:3230011/66‑1 (MQ=255)
agCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:1532572/66‑1 (MQ=255)
agCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:456914/66‑1 (MQ=255)
agCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:787273/66‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2628046/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:1089250/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2638511/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2513837/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2651812/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2660997/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2019242/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2225949/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2945077/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:2147860/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:3289810/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:3392774/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:1541741/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:1431450/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:1329351/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:579281/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:592911/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGGCAAGCGGTTGTTTATAag < 1:1193045/41‑1 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAATGCAGTCATCACCtcttc > 1:1609968/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:2728335/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:255651/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:1123486/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:1778167/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:1219751/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:1325864/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:1243246/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCtcttc > 1:1427316/1‑69 (MQ=255)
aCCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGAAAAAGGCAGTCATCACct > 1:1283110/1‑65 (MQ=255)
aaTATTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATAAAg < 1:2471115/46‑1 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:3401424/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:3045909/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:3068037/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:586443/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:1718502/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:582892/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:1583551/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:2816421/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:1323342/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:578396/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:2980623/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:1885758/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:1982646/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:2005045/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:2555241/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:2473736/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:945948/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaaa > 1:2101940/1‑43 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATaa > 1:654927/1‑42 (MQ=255)
tatTGTTGTCTTCGGCAAGCGGTTGTTTATAAGGAGGGATa > 1:575781/1‑41 (MQ=255)
tatTGTTGTCTTCGGAAAGCGGTTGTTTATAAGGAGGGATaaa > 1:1877570/1‑43 (MQ=255)
gtCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCg < 1:1835101/67‑1 (MQ=255)
ttCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTg > 1:2100979/1‑68 (MQ=255)
ttCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTg > 1:678349/1‑68 (MQ=255)
ttCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTg > 1:3277292/1‑68 (MQ=255)
ttCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTg > 1:223259/1‑68 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:561988/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:1664592/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:1733085/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:2776013/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:1943639/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:201249/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:854338/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:870954/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:2020807/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:960748/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:967227/66‑1 (MQ=255)
aCAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAc < 1:971239/66‑1 (MQ=255)
|
CGGCAAGCGAGGAATTACCGCGAATATTGTTGTCTTCGACAAGCGGTTGTTTATAAGGAGGGATAAAGGCAGTCATCACCTCTTCTTTGAGTTTTCCGTCTGAC > minE/1544968‑1545071
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
