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 |
2,088,571 |
T→C |
34.4% |
E282E (GAA→GAG) |
yhaJ ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,088,571 | 0 | T | C | 34.4%
| 37.8
/ 31.2
| 58 | E282E (GAA→GAG) | yhaJ | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base T (21/17); new base C (5/15); total (26/32) |
| Fisher's exact test for biased strand distribution p-value = 5.05e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTCCGGGCTGAC > minE/2088506‑2088636
|
aaCAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTc < 1:1406345/68‑1 (MQ=255)
aaCAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTc < 1:2240388/68‑1 (MQ=255)
ataataAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCa < 1:2677064/69‑1 (MQ=255)
ataataAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTCCCCCCa < 1:3285322/69‑1 (MQ=255)
taataaATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:2204017/69‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:3260228/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:469123/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:549974/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:235389/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:1947124/64‑1 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTcc > 1:658538/1‑54 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:1046123/1‑69 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:2882405/1‑69 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:2811477/1‑69 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:2307818/1‑69 (MQ=255)
ttCCGTTAAAAAGTTTGGGAATTTCCCGCAGCCACCAGGATTTCGCTTCCCCCATACTGTCACGACGcc > 1:2954089/1‑69 (MQ=255)
ttCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGcc > 1:2221668/1‑69 (MQ=255)
cGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAg < 1:3155856/68‑1 (MQ=255)
ttAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:128825/50‑1 (MQ=255)
tttGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAGGCCataataat < 1:401178/69‑1 (MQ=255)
tttGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAGGCCataataat < 1:1625545/69‑1 (MQ=255)
tttGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAGGCCataataat < 1:1736290/69‑1 (MQ=255)
tttGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAGGCCataataat < 1:2222402/69‑1 (MQ=255)
taccGCAGACACCAGGATTTCGCTTCCCCCATACTGTCac > 1:3170164/3‑40 (MQ=255)
tCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCac > 1:588717/1‑40 (MQ=255)
tCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCac > 1:1067121/1‑40 (MQ=255)
tCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCac > 1:1194561/1‑40 (MQ=255)
tCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCac > 1:3226804/1‑40 (MQ=255)
tCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCac > 1:2160647/1‑40 (MQ=255)
tCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCac > 1:1261924/1‑40 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:928809/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:1833889/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:3434742/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:419762/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:3322071/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:1249249/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:275929/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:576746/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:1457285/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:618471/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:2429112/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:1569604/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTc < 1:1758081/69‑1 (MQ=255)
ccAGGATTTCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGGCGATTc < 1:2940193/69‑1 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:700575/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:432661/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:275387/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:3425695/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:3255428/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:3146354/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:2474310/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:2465629/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCat > 1:1959992/1‑36 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGAtt > 1:970043/1‑62 (MQ=255)
tttCGCTTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTCCGGGCt > 1:1782006/1‑69 (MQ=255)
tttCGCCTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGGCGATTc < 1:3283334/63‑1 (MQ=255)
ttCGCTTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTCCGGGCTg > 1:1038972/1‑69 (MQ=255)
gCTTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTCCGGGCTgac < 1:1825883/68‑1 (MQ=255)
|
AACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAGGCCATAATAATATCGATCTCGCTGGTCGATTCCGGGCTGAC > minE/2088506‑2088636
|
| 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
