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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
834,227 |
G→T |
23.3% |
A895A (GCG→GCT) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,227 | 0 | G | T | 23.3%
| 137.9
/ 25.4
| 60 | A895A (GCG→GCT) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (32/14); new base T (9/5); total (41/19) |
| Fisher's exact test for biased strand distribution p-value = 7.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
GGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCC > minE/834159‑834296
|
ggCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGAc > 1:296099/1‑71 (MQ=255)
ggCGAATGCGATCTGATTCCAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTAc < 1:834024/71‑1 (MQ=255)
gCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt < 1:3167794/71‑1 (MQ=255)
cGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACtt < 1:3174812/71‑1 (MQ=255)
gTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTAc > 1:92043/1‑70 (MQ=255)
tGCGATCTGATTCCAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGa < 1:3664380/71‑1 (MQ=255)
gACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTAc < 1:2486990/66‑1 (MQ=255)
ccTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCt > 1:953478/1‑71 (MQ=255)
cTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCtt < 1:2009306/71‑1 (MQ=255)
tGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCtt > 1:1517072/1‑70 (MQ=255)
gATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTa > 1:2449633/1‑71 (MQ=255)
attccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCtt < 1:2850084/65‑1 (MQ=255)
attccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAc > 1:1821970/4‑71 (MQ=255)
aTCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc < 1:600680/71‑1 (MQ=255)
ttccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAcc > 1:3436047/3‑71 (MQ=255)
ttccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAcc < 1:708956/69‑1 (MQ=255)
ttccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAcc > 1:1029086/3‑71 (MQ=255)
tccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACct > 1:198545/2‑71 (MQ=255)
ccAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAAc < 1:223077/61‑1 (MQ=255)
cAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACctc > 1:1208483/1‑70 (MQ=255)
cAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACctcg > 1:1074586/1‑70 (MQ=255)
cAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACctcg > 1:2751193/1‑70 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGaa > 1:388248/1‑58 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:3209724/1‑66 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:3951602/1‑71 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:378712/1‑71 (MQ=255)
ggTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTAt > 1:3084154/1‑71 (MQ=255)
gTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt > 1:799961/1‑50 (MQ=255)
aaaaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgg < 1:19573/71‑1 (MQ=255)
aaaaCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCgg > 1:2444626/1‑71 (MQ=255)
aaaCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGc > 1:1980575/1‑71 (MQ=255)
aaaCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGc > 1:186387/1‑71 (MQ=255)
aaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgggc > 1:1391442/1‑69 (MQ=255)
aCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt < 1:3739987/45‑1 (MQ=255)
aCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGccc < 1:2561972/71‑1 (MQ=255)
cgcgCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCg > 1:1932590/1‑70 (MQ=255)
gcgcCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCt > 1:1281191/1‑71 (MQ=255)
cacacaTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGAt < 1:3158329/70‑1 (MQ=255)
cacaTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATg > 1:2937784/1‑69 (MQ=255)
tATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTa > 1:2014898/1‑44 (MQ=255)
aTGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAAt > 1:320999/1‑71 (MQ=255)
ggTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACctct < 1:3806373/46‑1 (MQ=255)
agagCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATg > 1:603530/1‑71 (MQ=255)
agagCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATg > 1:3275776/1‑71 (MQ=255)
gagCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATgg < 1:3911881/71‑1 (MQ=255)
agCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGc > 1:1367208/1‑71 (MQ=255)
cgcgATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCgg > 1:2996914/1‑71 (MQ=255)
cgcgACTACCCTGCTACGTATGAACGCTTTACCTCGCTCGGGCCATTGATg > 1:3911127/1‑51 (MQ=255)
cgATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGt > 1:558700/1‑70 (MQ=255)
gATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTaa < 1:1628483/71‑1 (MQ=255)
gATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTa > 1:1968555/1‑70 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGa > 1:2842278/1‑44 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGa > 1:2904507/1‑44 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATg > 1:132678/1‑46 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATg > 1:102027/1‑46 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:2718844/1‑60 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:306251/1‑60 (MQ=255)
aTCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGa > 1:75292/1‑42 (MQ=255)
gCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGc < 1:3776216/71‑1 (MQ=255)
cGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGcc < 1:103031/71‑1 (MQ=255)
|
GGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCC > minE/834159‑834296
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
