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 |
1,126,307 |
A→C |
71.5% |
V109V (GTT→GTG) |
pheS ← |
phenylalanine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,126,307 | 0 | A | C | 71.5%
| 55.9
/ 20.5
| 42 | V109V (GTT→GTG) | pheS | phenylalanine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (3/9); new base C (20/10); total (23/19) |
| Fisher's exact test for biased strand distribution p-value = 1.95e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
GCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCC > minE/1126243‑1126370
|
gCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:3252901/69‑1 (MQ=255)
gCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:1888421/69‑1 (MQ=255)
ttGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCa < 1:2857263/69‑1 (MQ=255)
ttGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCa < 1:2338267/69‑1 (MQ=255)
ttGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCa < 1:22968/69‑1 (MQ=255)
gTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGAccgccg < 1:321473/69‑1 (MQ=255)
tAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGAccgccg < 1:1397440/68‑1 (MQ=255)
gCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTc < 1:1860737/69‑1 (MQ=255)
ccAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCa > 1:2132630/1‑69 (MQ=255)
ccAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCa > 1:3205970/1‑69 (MQ=255)
cTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGc > 1:2066082/1‑68 (MQ=255)
cGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGcgacga < 1:2864777/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:171666/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:75833/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1332349/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1379135/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:2194106/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:561889/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1544558/68‑1 (MQ=255)
gTCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:879628/68‑1 (MQ=255)
tCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:882632/67‑1 (MQ=255)
tCGATGGTACGGGTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCaa < 1:1073963/67‑1 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGCCGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2966534/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATc > 1:731398/1‑55 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGttt > 1:2339030/1‑63 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:526925/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:3403063/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:3329/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:812173/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2498043/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:740394/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2726898/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2604776/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2599318/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:2267239/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1998917/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1926931/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1840568/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1643913/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1489509/1‑68 (MQ=255)
gggTCACCGGATGCAGCCCGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:1262032/1‑68 (MQ=255)
gggTCACCGGATGCAGCCAGCCGTTTTCAATGCGACGACCCGGCAGGGAGACATCAATCGTTTccgcc > 1:3399510/1‑68 (MQ=255)
|
GCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCAGAGAGACATCAATCGTTTCCGCC > minE/1126243‑1126370
|
| 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
