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 F8 I0 R1
|
82 |
77.9 |
2158605 |
86.8% |
1873669 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
419,065:1 |
+G |
100% |
coding (664/1176 nt) |
ubiF → |
2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol oxygenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 419,065 | 1 | . | G | 96.1%
| 189.6
/ 0.2
| 51 | coding (664/1176 nt) | ubiF | 2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol oxygenase |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base G (0/49); total (0/51) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. |
GCAATTTACTCCGGACGGACCGCGTGCGTTTCTGCCGTTGTTTGATAACT‑GGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAGAATATGAAT > minE/419016‑419124
|
gcaATTTACT‑CGGACGGACCGCGTGCGTTTCTGCCGTTGTTTGATAACT‑GGGCATCGCTGGTGTGGt < 1:1821961/67‑1 (MQ=255)
caATTTACTCCGGACGGACCGCGTGCGTTTCTGCCGTTGTTTGATAACT‑GGGCATCGCTGGTGTGGt < 1:442435/67‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:571033/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:2076136/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:2114142/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:2119613/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:213076/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:236609/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:327095/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:330537/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:371969/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:397015/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:54496/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:2024687/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:57191/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:680169/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:683846/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:686793/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:715727/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:729651/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:78831/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:835879/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:866201/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:900620/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:938841/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:973730/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1682199/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1038040/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1179146/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1195011/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1250447/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1275368/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1279684/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1351919/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1408099/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1530256/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1593361/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1673574/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1022551/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1753360/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1830838/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1837419/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1896339/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1919084/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1922124/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1963916/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1984607/66‑1 (MQ=255)
aTAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1997662/66‑1 (MQ=255)
tAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:412445/65‑1 (MQ=255)
tAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:1471037/65‑1 (MQ=255)
tAACTGGGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAgaatatgaat < 1:2002336/65‑1 (MQ=255)
|
GCAATTTACTCCGGACGGACCGCGTGCGTTTCTGCCGTTGTTTGATAACT‑GGGCATCGCTGGTGTGGTATGACTCTCCGGCGCGTATTCGCCAGTTGCAGAATATGAAT > minE/419016‑419124
|
| 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
