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 |
2,160,331 |
T→C |
100% |
E419E (GAA→GAG) |
murA ← |
UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,160,331 | 0 | T | C | 77.9%
| 46.4
/ 6.9
| 36 | E419E (GAA→GAG) | murA | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (7/1); new base C (22/6); total (29/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CTGGCGGTAGCCCCGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTT > minE/2160286‑2160389
|
cTGGCGGTAGCCCCGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAatat > 1:3398431/1‑68 (MQ=255)
aCGGGGCTGCCAGCTCTCAGACAATTTCTCGCCTTTCACACACTCAatat > 1:3060344/1‑50 (MQ=255)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCaa > 1:100548/1‑47 (MQ=37)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:3268324/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:3144591/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:333052/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:338108/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:2569262/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:2478800/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:2452422/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:2427428/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:2368090/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:2261598/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:2241199/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:1999964/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:1917651/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:1819534/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:417232/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:1540985/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:702525/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:706253/1‑50 (MQ=38)
aCGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:1197254/1‑50 (MQ=38)
aCGGGGCTGACAGCTCTCAGACAATTACTCGCCTTTCACACACTCAatat > 1:125292/1‑50 (MQ=37)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:661908/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:716199/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1177839/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1476594/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1393731/69‑1 (MQ=255)
aGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTc < 1:1184451/67‑1 (MQ=255)
aGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1218481/59‑1 (MQ=38)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:313886/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:2843212/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:2528436/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:1798526/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:594983/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:904942/1‑68 (MQ=255)
|
CTGGCGGTAGCCCCGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTT > minE/2160286‑2160389
|
| 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
