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 |
383,184 |
C→T |
28.6% |
G198G (GGC→GGT) |
entB → |
isochorismatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 383,184 | 0 | C | T | 28.6%
| 76.4
/ 29.4
| 73 | G198G (GGC→GGT) | entB | isochorismatase |
| Reads supporting (aligned to +/- strand): ref base C (20/32); new base T (9/12); total (29/44) |
| Fisher's exact test for biased strand distribution p-value = 7.95e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGCTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAGCGGCGCTGCGTG > minE/383119‑383248
|
gcgcTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCgg > 1:976623/1‑69 (MQ=255)
gcgcTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCgg > 1:741483/1‑69 (MQ=255)
gcgcTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCgg > 1:2590472/1‑69 (MQ=255)
gcgcTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCgg > 1:2313032/1‑69 (MQ=255)
gcgcTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCgg > 1:2102381/1‑69 (MQ=255)
gcgcTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCgg > 1:1923575/1‑69 (MQ=255)
ggCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:2545391/69‑1 (MQ=255)
ggCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:2766513/69‑1 (MQ=255)
ggCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:1376609/69‑1 (MQ=255)
ggCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:1226014/69‑1 (MQ=255)
ggCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:1161172/69‑1 (MQ=255)
ggCCGATTTCAGACGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:2958660/69‑1 (MQ=255)
aTTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:2880441/64‑1 (MQ=255)
tCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGtgat > 1:1170904/1‑64 (MQ=255)
cAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:2936996/60‑1 (MQ=255)
cAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGggtggt < 1:554891/60‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:1505636/68‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:1466331/68‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:534253/68‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:241062/68‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:1443666/68‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:1056975/68‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:837224/68‑1 (MQ=255)
ccGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTgaag < 1:3269726/68‑1 (MQ=255)
aCGAGCATTTGATGTCTCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTAc < 1:1626493/69‑1 (MQ=255)
aCGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTAc < 1:120679/69‑1 (MQ=255)
aCGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTAc < 1:2968321/69‑1 (MQ=255)
aCGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTAc > 1:189243/1‑69 (MQ=255)
aCGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTAc < 1:1287238/69‑1 (MQ=255)
cGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTAc < 1:2704832/68‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:2925502/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:2914172/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:3342233/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:3364581/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:473388/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:2815483/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:543689/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:563857/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:2718425/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:1068202/69‑1 (MQ=255)
aGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:2611146/69‑1 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGcc > 1:473898/1‑36 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:3406174/1‑68 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:899095/1‑68 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:1264764/1‑68 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:223125/1‑68 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:2122714/1‑68 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:3216993/1‑68 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:3189349/1‑68 (MQ=255)
tGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCa > 1:1654657/1‑68 (MQ=255)
tCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAg < 1:1270687/61‑1 (MQ=255)
tCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAg < 1:3331056/61‑1 (MQ=255)
tCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAg < 1:1589192/61‑1 (MQ=255)
tCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAg < 1:209485/61‑1 (MQ=255)
tCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAg < 1:2463157/61‑1 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:1514233/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:1745117/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:1114048/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:1955091/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:3362777/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:3141362/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:3005018/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:2771450/1‑69 (MQ=255)
ccGGACGTTCTGGTCGGGTGGTGATGACCGAAGAATTGCTGCCAGCACCTATCCCCGCCAGCAAAgcgg > 1:1168521/1‑69 (MQ=255)
cGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAgcggc < 1:1943673/69‑1 (MQ=255)
cGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAgcggc < 1:448800/69‑1 (MQ=255)
cGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAgcggc < 1:2061625/69‑1 (MQ=255)
cGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAgcggc < 1:778011/69‑1 (MQ=255)
gACGTTCTGGTCGGGTGGTGATGACCGAAGAATtgctgc < 1:2412802/39‑1 (MQ=37)
ttCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAGCGGCGCTGc > 1:2410460/1‑68 (MQ=255)
ttCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAGCGGCGCTGc > 1:1376368/1‑68 (MQ=255)
ttCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAGCGGCGCTGc > 1:951206/1‑68 (MQ=255)
ttCTGGCAGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAGCGGCGCTGc > 1:2025358/1‑68 (MQ=255)
cTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAGCGGCGCTGCGTg < 1:2017540/69‑1 (MQ=255)
|
GCGCTGGCCGATTTCAGCCGTGACGAGCATTTGATGTCGCTGAAATATGTGGCCGGACGTTCTGGCCGGGTGGTGATGACTGAAGAATTACTGCCAGCACCTATCCCCGCCAGCAAAGCGGCGCTGCGTG > minE/383119‑383248
|
| 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
