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 |
1,036,685 |
A→C |
41.4% |
A692A (GCA→GCC) |
rsxC → |
fused predicted 4Fe‑4S ferredoxin‑type protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,036,685 | 0 | A | C | 41.4%
| 38.3
/ 45.0
| 46 | A692A (GCA→GCC) | rsxC | fused predicted 4Fe‑4S ferredoxin‑type protein |
| Reads supporting (aligned to +/- strand): ref base A (17/10); new base C (7/12); total (24/22) |
| Fisher's exact test for biased strand distribution p-value = 1.34e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.85e-01 |
CGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCG > minE/1036621‑1036751
|
aggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCCGTCGAAGCGGCTATTGCCcgt > 1:2943849/2‑67 (MQ=11)
aggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCCGTCGAAGCGGCTATTGCCcgt > 1:2998915/2‑67 (MQ=11)
aggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCCGTCGAAGCGGCTATTGCCcgt > 1:762483/2‑67 (MQ=11)
aggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCCGTCGAAGCGGCTATTGCCcgt > 1:2802934/2‑67 (MQ=11)
aggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCCGTCGAAGCGGCTATTGCCcgt > 1:2712753/2‑67 (MQ=11)
aggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCCGTCGAAGCGGCTATTGCCcgt > 1:2280364/2‑67 (MQ=11)
aggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCCGTCGAAGCGGCTATTGCCcgt > 1:2375354/2‑67 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:955797/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:2975563/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:2800153/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:3291422/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:2421909/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:427945/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:2296654/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:2286288/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:2202809/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:1227361/69‑4 (MQ=11)
ggCTAATGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:857537/69‑4 (MQ=11)
tGCGGAGCCAGAAGAACAGATTGATCCGCGCAAAGCCGCTGTCGAAGCGGCTATTGCCcgtga < 1:752547/63‑4 (MQ=11)
cGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCa > 1:3334150/1‑68 (MQ=255)
cGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCa > 1:748598/1‑68 (MQ=255)
cGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCa > 1:2889386/1‑68 (MQ=255)
cGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGAGGCTATTGCACGCGCCAAAGCa > 1:308637/1‑68 (MQ=255)
ccAGAAGAACAGATTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCGCGCAAg < 1:378281/69‑1 (MQ=255)
ccAGAAGAACAGATTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCGCGCAAg < 1:604434/69‑1 (MQ=255)
ccAGAAGAACAGATTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCGCGCAAg < 1:2927672/69‑1 (MQ=255)
ccAGAAGAACAGATTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCGCGCAAg < 1:2735994/69‑1 (MQ=255)
ccAGAAGAACAGATTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCGCGCAAg < 1:2541943/69‑1 (MQ=255)
aagaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg < 1:3222271/69‑1 (MQ=255)
aagaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg < 1:1840138/69‑1 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCTGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:1491741/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCAcgcg > 1:3272631/1‑50 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:231427/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:769768/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:1364305/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:693893/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:1980714/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:2311160/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:380630/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:1220818/1‑68 (MQ=255)
agaaCAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:1046894/1‑68 (MQ=255)
agaaCAGGTTGATACGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg > 1:3113409/1‑68 (MQ=255)
gTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCaa < 1:3003422/69‑1 (MQ=255)
ccGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCt < 1:863412/69‑1 (MQ=255)
aGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTgg < 1:1172886/47‑1 (MQ=255)
gCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCcg > 1:2529004/1‑69 (MQ=255)
|
CGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCG > minE/1036621‑1036751
|
| 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
