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 |
834,248 |
T→G |
14.3% |
S902S (TCT→TCG) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,248 | 0 | T | G | 14.3%
| 81.5
/ 12.2
| 42 | S902S (TCT→TCG) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (26/10); new base G (4/2); total (30/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01 |
AGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATG > minE/834179‑834317
|
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:378712/1‑71 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:3951602/1‑71 (MQ=255)
ggTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTAt > 1:3084154/1‑71 (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)
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)
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 > 1:2904507/1‑44 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGa > 1:2842278/1‑44 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATg > 1:102027/1‑46 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATg > 1:132678/1‑46 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:306251/1‑60 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:2718844/1‑60 (MQ=255)
aTCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGa > 1:75292/1‑42 (MQ=255)
gCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGc < 1:3776216/71‑1 (MQ=255)
cGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGcc < 1:103031/71‑1 (MQ=255)
cTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:1922197/1‑49 (MQ=255)
cTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTgg < 1:746364/71‑1 (MQ=255)
ttACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:2619149/1‑48 (MQ=255)
aaCGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTaaa < 1:3743074/53‑1 (MQ=255)
aaCGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTaaa < 1:890923/53‑1 (MQ=255)
cGCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGCGGTAAAGGGAttt < 1:1136861/58‑2 (MQ=255)
cTTTACCTCTATCGGCCCGCTGATGGAGAATATCGGTAATGGCGGTAAAGGGATTGcc < 1:570014/58‑1 (MQ=255)
ttACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGc > 1:3054743/1‑71 (MQ=255)
tACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGAATACCCaggat > 1:897088/1‑67 (MQ=255)
ccTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGGCTGGaa > 1:3735170/1‑58 (MQ=255)
ctATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATg > 1:911210/1‑71 (MQ=255)
|
AGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATG > minE/834179‑834317
|
| 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
