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 |
836,455 |
G→C |
25.0% |
A391A (GCG→GCC) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 836,455 | 0 | G | C | 25.0%
| 88.5
/ 29.8
| 52 | A391A (GCG→GCC) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base G (21/18); new base C (8/5); total (29/23) |
| Fisher's exact test for biased strand distribution p-value = 7.52e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.91e-01 |
GTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGAT > minE/836388‑836517
|
gTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAAt > 1:1101669/1‑71 (MQ=255)
gTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAAt < 1:2810159/71‑1 (MQ=255)
cTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATctgct < 1:976080/71‑1 (MQ=255)
gTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAc > 1:1452578/1‑70 (MQ=255)
tAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAccg > 1:1734793/1‑71 (MQ=255)
aCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGt < 1:1073971/71‑1 (MQ=255)
cGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGCCCGCCgg > 1:2609738/1‑69 (MQ=255)
cGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGt > 1:2610465/1‑70 (MQ=255)
cGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGt > 1:641943/1‑70 (MQ=255)
cGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGt > 1:3186378/1‑70 (MQ=255)
ggCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAAt > 1:1453048/1‑54 (MQ=255)
gCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGAt < 1:2401520/71‑1 (MQ=255)
tgcTGCCCGCCATCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATAcc > 1:3664896/3‑71 (MQ=255)
cTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCa < 1:1266547/70‑1 (MQ=255)
ccAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCCGTGATACCAAAc < 1:2405206/70‑1 (MQ=255)
cAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCg < 1:426982/71‑1 (MQ=255)
aGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATct < 1:1088336/45‑1 (MQ=255)
aGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCgg < 1:2976921/71‑1 (MQ=255)
gACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAccgc < 1:2530743/53‑1 (MQ=255)
gACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAccg > 1:544649/1‑52 (MQ=255)
gTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACt < 1:3147642/71‑1 (MQ=255)
atCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTa > 1:2848576/2‑69 (MQ=255)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGa > 1:896972/1‑45 (MQ=16)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACt < 1:1755072/70‑1 (MQ=255)
cGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTgc > 1:842499/1‑71 (MQ=255)
gAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTgc < 1:2414884/70‑1 (MQ=255)
aGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGa > 1:236314/1‑50 (MQ=255)
aGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTgcgcg > 1:2001257/1‑70 (MQ=255)
ccTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTgcgggcgc < 1:711000/71‑3 (MQ=255)
gCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTg > 1:68702/1‑70 (MQ=255)
gCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCgg > 1:2983601/1‑56 (MQ=255)
gTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTgcggg > 1:23711/1‑61 (MQ=255)
aTTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACg > 1:721657/1‑71 (MQ=255)
ttCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACg < 1:2141125/70‑1 (MQ=255)
ttCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACg < 1:3651336/70‑1 (MQ=255)
ttCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACg < 1:2835664/70‑1 (MQ=255)
tCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTa > 1:518274/1‑71 (MQ=255)
ccGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTAt > 1:3076874/1‑71 (MQ=255)
ggTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGc > 1:123649/1‑71 (MQ=255)
gTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCt < 1:2599427/71‑1 (MQ=255)
aCAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTgg > 1:3529363/1‑71 (MQ=255)
aCAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTgg > 1:3192528/1‑71 (MQ=255)
aCAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTgg > 1:721740/1‑71 (MQ=255)
cAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGc > 1:1492931/1‑71 (MQ=255)
cAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGc < 1:1249856/71‑1 (MQ=255)
aGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCg < 1:1119820/71‑1 (MQ=255)
tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCa < 1:1286605/51‑1 (MQ=255)
tATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACGGATGATGGCGAt > 1:140326/1‑71 (MQ=255)
tATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACGGATGATGGCGAt > 1:263630/1‑71 (MQ=255)
aTCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGt < 1:1456546/40‑1 (MQ=255)
tCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGc < 1:190613/62‑1 (MQ=255)
tGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCa > 1:535422/1‑47 (MQ=255)
|
GTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGAT > minE/836388‑836517
|
| 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
