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 |
2,660,954 |
G→A |
48.5% |
A155A (GCG→GCA) |
glpR → |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,660,954 | 0 | G | A | 48.5%
| 2.7
/ 59.5
| 70 | A155A (GCG→GCA) | glpR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base G (21/15); new base A (16/18); total (37/33) |
| Fisher's exact test for biased strand distribution p-value = 4.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAAGATTTTCGCATCATTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATCGATAGC > minE/2660886‑2661020
|
gaagaTTTTCGCATCATTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCg > 1:2183522/1‑69 (MQ=255)
gaagaTTTTCGCATCATTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCg > 1:2010859/1‑69 (MQ=255)
gaagaTTTTCGCATCATTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCg > 1:2946095/1‑69 (MQ=255)
gaagaTTTTCGCATCATTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCg > 1:2950089/1‑69 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:2405172/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:2421417/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:2631380/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:2122438/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:2658002/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:3111235/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:3136973/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:1103243/69‑1 (MQ=255)
atcatTCTTGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:1318779/69‑1 (MQ=255)
atcatTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGAtttt < 1:2764373/69‑1 (MQ=255)
atcatTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGAtttt < 1:1973796/69‑1 (MQ=255)
atTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtc > 1:3331636/1‑69 (MQ=255)
atTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtc > 1:2463410/1‑69 (MQ=255)
atTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtc > 1:270028/1‑69 (MQ=255)
atTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtc > 1:274081/1‑69 (MQ=255)
atTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtc > 1:2952865/1‑69 (MQ=255)
atTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtc > 1:1290130/1‑69 (MQ=255)
ttCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtct > 1:1338514/1‑69 (MQ=255)
ttCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtct > 1:2373433/1‑69 (MQ=255)
ttCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtct > 1:1349093/1‑69 (MQ=255)
ttCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTAtct > 1:680824/1‑69 (MQ=255)
ggCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGc < 1:588276/69‑1 (MQ=255)
ggCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGc < 1:1122567/69‑1 (MQ=255)
ttACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGAt < 1:3294338/69‑1 (MQ=255)
gcGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:2893350/2‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:269378/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:237705/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:2712434/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt > 1:2076218/1‑46 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTc > 1:1703625/1‑58 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:70603/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:59991/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:1031324/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:74495/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:2378899/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:1751098/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:1431748/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:1919663/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:2091249/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:21043/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:2106623/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGAttt > 1:1068099/1‑69 (MQ=255)
aCGCAGCCGCGATGGCGGGATCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCGTGAttt > 1:2326724/1‑69 (MQ=255)
cgcgATGGCGGGATCATTGGCGAAGCAACGCTCGAtttt < 1:2123849/39‑1 (MQ=255)
aTCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:2601385/69‑1 (MQ=255)
aTCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:654785/69‑1 (MQ=255)
aTCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:2053489/69‑1 (MQ=255)
aTCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:631881/69‑1 (MQ=255)
aTCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:2768097/69‑1 (MQ=255)
aTCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:2868882/69‑1 (MQ=255)
aTCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:2419508/69‑1 (MQ=255)
tCATTGGCGAAGCAACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGc < 1:2854721/68‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:1181689/69‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:537049/69‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:1499763/69‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:1895477/69‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:1708245/69‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:1801743/69‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:2909777/69‑1 (MQ=255)
aTTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGc < 1:2067831/69‑1 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCAt > 1:2496779/1‑66 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATc > 1:2987016/1‑67 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATc > 1:129115/1‑67 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATc > 1:606852/1‑67 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATc > 1:2043766/1‑67 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATc > 1:634653/1‑67 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATc > 1:106200/1‑67 (MQ=255)
cGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATc > 1:1045484/1‑67 (MQ=255)
gCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATCGATAGc < 1:3321449/69‑1 (MQ=255)
gCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATCGATAGc < 1:1915453/69‑1 (MQ=255)
|
GAAGATTTTCGCATCATTCTCGCCGGTGGCGAATTACGCAGCCGCGATGGCGGGATCATTGGCGAAGCGACGCTCGATTTTATCTCCCAGTTCCGCCTTGATTTCGGCATTCTGGGGATAAGCGGCATCGATAGC > minE/2660886‑2661020
|
| 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
