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 |
746,152 |
A→G |
59.6% |
V271V (GTA→GTG) |
ndh → |
respiratory NADH dehydrogenase 2/cupric reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 746,152 | 0 | A | G | 59.6%
| 13.2
/ 21.9
| 37 | V271V (GTA→GTG) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| Reads supporting (aligned to +/- strand): ref base A (6/9); new base G (14/8); total (20/17) |
| Fisher's exact test for biased strand distribution p-value = 1.93e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CACCAGTGCTGATGAAGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCGGTGGTCTTGAAACTAACCGTATCA > minE/746086‑746219
|
cACCAGTGCTGATGAAGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTATg > 1:2329544/1‑69 (MQ=255)
cACCAGTGCTGATGAAGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTATg > 1:614081/1‑69 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:987766/69‑1 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:2577765/69‑1 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:2778160/69‑1 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:1973977/69‑1 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:1935824/69‑1 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:3256437/69‑1 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:352719/69‑1 (MQ=255)
aaGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGGGAt > 1:1267218/1‑67 (MQ=255)
aGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCa < 1:1949596/68‑1 (MQ=255)
ggcggcCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGTGATCaa < 1:6401/68‑1 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCa > 1:448720/1‑42 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGCCTTCCt > 1:2795012/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTcc > 1:2985171/1‑67 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:3002597/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:2977802/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:2937578/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:1110469/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:185524/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:1091745/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:1413857/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:1722197/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:254716/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:2089383/1‑68 (MQ=255)
aaaGATGGCGAATATATTGAGGCTGATCTGATGGTGTGGGCAGCCGGGATCAAAGCGCCTGACTTCCt > 1:2148212/1‑68 (MQ=255)
aaGATGGCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCt > 1:1857969/1‑67 (MQ=255)
aaGATGGCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCt > 1:2992182/1‑67 (MQ=255)
aaGATGGCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCt > 1:2622822/1‑67 (MQ=255)
gCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGaaa < 1:1288606/65‑1 (MQ=255)
tatatTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCggt < 1:3178234/69‑1 (MQ=255)
tatatTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCggt < 1:1742472/69‑1 (MQ=255)
tatatTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCggt < 1:3298685/69‑1 (MQ=255)
tatatTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCggt < 1:2251173/69‑1 (MQ=255)
tatatTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCggt < 1:781198/69‑1 (MQ=255)
tatatTGAGGATGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCggt < 1:1664316/69‑1 (MQ=255)
atatTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCggt < 1:674574/68‑1 (MQ=255)
aTGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCGGTGGTCTTGAAACTAACCGTATCa < 1:1964760/68‑1 (MQ=255)
aTGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCGGTGGTCTTGAAACTAACCGTATCa < 1:2782783/68‑1 (MQ=255)
aTGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCGGTGGTCTTGAAACTAACCGTATCa < 1:2759206/68‑1 (MQ=255)
|
CACCAGTGCTGATGAAGGCGGCCTGCACACTAAAGATGGCGAATATATTGAGGCTGATCTGATGGTATGGGCAGCCGGGATCAAAGCGCCAGACTTCCTGAAAGATATCGGTGGTCTTGAAACTAACCGTATCA > minE/746086‑746219
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
