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 |
1,126,349 |
A→G |
77.6% |
S95S (TCT→TCC) |
pheS ← |
phenylalanine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,126,349 | 0 | A | G | 77.6%
| 50.1
/ 9.1
| 40 | S95S (TCT→TCC) | pheS | phenylalanine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (2/7); new base G (20/11); total (22/18) |
| Fisher's exact test for biased strand distribution p-value = 5.35e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.44e-01 |
GTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCTTTCCAGTTCCGCTTTACGCG > minE/1126292‑1126416
|
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1332349/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1379135/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:879628/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1544558/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:171666/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:75833/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:2194106/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:561889/68‑1 (MQ=255)
tCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1073963/67‑1 (MQ=255)
tCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:882632/67‑1 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGCCGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2966534/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATc > 1:731398/1‑55 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGttt > 1:2339030/1‑63 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2726898/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1262032/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:3329/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:3403063/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:526925/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:740394/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:812173/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2604776/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1489509/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1643913/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1840568/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1926931/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1998917/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2267239/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2498043/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2599318/1‑68 (MQ=255)
gggTCACCGGATGCAGCCAGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:3399510/1‑68 (MQ=255)
tcaCCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:2658158/52‑1 (MQ=255)
aCCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGa < 1:3216484/69‑1 (MQ=255)
aCCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGa < 1:3052475/69‑1 (MQ=255)
aCCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGa < 1:1344406/69‑1 (MQ=255)
ttCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCt > 1:707778/1‑69 (MQ=255)
ttCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCt > 1:317231/1‑69 (MQ=255)
tGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCTTTcc < 1:246495/68‑1 (MQ=255)
tGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCTTTcc < 1:688593/68‑1 (MQ=255)
tGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCTTTcc < 1:823230/68‑1 (MQ=255)
tGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCTTTcc < 1:852092/68‑1 (MQ=255)
agagaCATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCTTTCCAGTTCCGCTTTAcgcg < 1:2329357/68‑1 (MQ=255)
|
GTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCCGCCAGACGCGCATTCAGTGCAGCGCTTTCCAGTTCCGCTTTACGCG > minE/1126292‑1126416
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
