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 |
2,317,828 |
T→A |
36.3% |
D132E (GAT→GAA) |
fpr → |
ferredoxin‑NADP reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,317,828 | 0 | T | A | 36.3%
| 53.9
/ 52.1
| 66 | D132E (GAT→GAA) | fpr | ferredoxin‑NADP reductase |
| Reads supporting (aligned to +/- strand): ref base T (30/12); new base A (16/8); total (46/20) |
| Fisher's exact test for biased strand distribution p-value = 7.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GATGCTGGCAACCGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTATGCCGCCGACTTAAGCTAT > minE/2317762‑2317885
|
gATGCTGGCAACCGGTACAGCGACTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCg > 1:73442/1‑69 (MQ=255)
aaCCGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCaaaa < 1:1140596/68‑1 (MQ=255)
aCCGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCaaaa < 1:989171/67‑1 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:380373/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:224569/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:2300130/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:2735227/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:2773687/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:2800931/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:3111335/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:3222868/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:1775845/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:1749680/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:1597167/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:3243082/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:1375030/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:671474/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:733390/1‑67 (MQ=255)
ccGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAATTGGGCAAAGATTTAGAACGCTTCaaaaaca > 1:994642/1‑67 (MQ=255)
ggTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTg > 1:27183/1‑69 (MQ=255)
ggTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTg > 1:427503/1‑69 (MQ=255)
ggTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTg > 1:592615/1‑69 (MQ=255)
ggTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTg > 1:966535/1‑69 (MQ=255)
ggTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTg > 1:1372444/1‑69 (MQ=255)
ggTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGAAAAGATTTAGATAGCTTCAAAAATCTg > 1:2395396/1‑69 (MQ=255)
gCGATTGGCCCTTATTTATCTATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTg > 1:1209520/1‑69 (MQ=255)
gCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTg > 1:2948257/1‑69 (MQ=255)
gCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTg > 1:531863/1‑69 (MQ=255)
gCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTg > 1:1005162/1‑69 (MQ=255)
cGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTgg > 1:3077145/1‑69 (MQ=255)
cGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTgg > 1:1992299/1‑69 (MQ=255)
cGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTgg > 1:3093184/1‑69 (MQ=255)
atCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTa > 1:2914300/1‑69 (MQ=255)
atCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTa > 1:563574/1‑69 (MQ=255)
atCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTa > 1:12587/1‑69 (MQ=255)
atCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTa > 1:2342095/1‑69 (MQ=255)
atCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTa > 1:760025/1‑69 (MQ=255)
atCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTa > 1:1572085/1‑69 (MQ=255)
atCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTa > 1:3277940/1‑69 (MQ=255)
gATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTAt < 1:1580328/67‑1 (MQ=255)
gATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGGCCTGGTGCACGCCGCACGTTAt < 1:1074884/67‑1 (MQ=255)
aGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTATGCCGCCGACTTaa > 1:1838501/1‑68 (MQ=255)
aaaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTATGCCGCCGACTTAAGCTAt > 1:3215020/1‑69 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt > 1:1493684/1‑47 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt > 1:1314148/1‑47 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:93731/47‑1 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:1200940/47‑1 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:1875895/47‑1 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt > 1:117061/1‑47 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt > 1:1912651/1‑47 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt > 1:2742182/1‑47 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:269514/47‑1 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:2606258/47‑1 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt > 1:2479190/1‑47 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:2370228/47‑1 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:2294237/47‑1 (MQ=255)
aaGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt > 1:2122417/1‑47 (MQ=255)
aGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGt < 1:745568/46‑1 (MQ=255)
aGATTTAGAACGCTTCAAAAACATGGTGCTGGTTCACGCCGCACGATATGCCGCCGACTTaa < 1:3292693/62‑1 (MQ=255)
aGATTTAGAACGCTTCAAAAACATGGTGCTGGTTCACGCCGCACGATATGCCGCCGACTTaa < 1:3292918/62‑1 (MQ=255)
aGATTTAGAACGCTTCAAAAACATGGTGCTGGTTCACGCCGCACGATATGCCGCCGACTTaa < 1:3411581/62‑1 (MQ=255)
aGATTTAGAACGCTTCAAAAACATGGTGCTGGTTCACGCCGCACGATATGCCGCCGACTTaa < 1:192325/62‑1 (MQ=255)
aGATTTAGAACGCTTCAAAAACATGGTGCTGGTTCACGCCGCACGATATGCCGCCGACTTaa < 1:2009800/62‑1 (MQ=255)
aGAATTAGAACGCTTCAAAAACATGGTGCTGGTTCACCCCGCACGATATGCCGCCGACTTaa < 1:2086308/62‑1 (MQ=255)
gATTTAGAACGCTTCAAAAACATGGTGCTGGTTCACGCCGCACGATATGCCGCCGACTTaa < 1:3162947/61‑1 (MQ=255)
aTTTAGAACGCTTCAAAAACATGGTGCTGGTTCACGCCGCACGATATGCCGCCGACTTaa < 1:2780711/60‑1 (MQ=255)
|
GATGCTGGCAACCGGTACAGCGATTGGCCCTTATTTATCGATTCTGCAACTAGGTAAAGATTTAGATCGCTTCAAAAATCTGGTCCTGGTGCACGCCGCACGTTATGCCGCCGACTTAAGCTAT > minE/2317762‑2317885
|
| 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
