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 |
435,104 |
T→C |
59.2% |
E32E (GAA→GAG) |
ybfE ← |
LexA regulated protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 435,104 | 0 | T | C | 59.2%
| 17.8
/ 32.1
| 49 | E32E (GAA→GAG) | ybfE | LexA regulated protein |
| Reads supporting (aligned to +/- strand): ref base T (18/2); new base C (7/22); total (25/24) |
| Fisher's exact test for biased strand distribution p-value = 6.31e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCTTAAGGCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCGGATTAGTTTTCGGTCGTCCCGGTCGACGCTCGTGCGCGAACAGATCT > minE/435045‑435167
|
cGCTTAAGGCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATcgcg > 1:2719175/1‑68 (MQ=255)
cGCTTAAGGCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATcgcg > 1:3286782/1‑68 (MQ=255)
cGCTTAAGGCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATcgcg > 1:389273/1‑68 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATcgc > 1:1856115/1‑59 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:513178/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:397077/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:631374/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:641471/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:1009621/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:1532467/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:2576798/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:2521940/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:2145172/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:174182/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgg > 1:1755769/1‑69 (MQ=255)
gCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCgc > 1:2143018/1‑68 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAg > 1:447420/1‑56 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAg > 1:3009849/1‑56 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAg > 1:1934968/1‑56 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAg > 1:1010168/1‑56 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAg > 1:172908/1‑56 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAg > 1:12876/1‑56 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAg > 1:1398586/1‑56 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:2034053/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:790954/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:1140768/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:115207/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:1219648/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:443191/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:1272485/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:3363229/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:3174842/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:310764/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:1480214/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:2701606/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:1537600/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:158296/68‑1 (MQ=255)
ttGTCGCGTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:1725334/68‑1 (MQ=255)
gcgTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGTTTTCGgtcg < 1:2989943/69‑1 (MQ=255)
gcgTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGTTTTCGgtcg < 1:2783943/69‑1 (MQ=255)
gcgTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGTTTTCGgtcg < 1:349054/69‑1 (MQ=255)
gcgTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGTTTTCGgtcg < 1:1713886/69‑1 (MQ=255)
gcgTTTTAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGTTTTCGgtcg < 1:1060152/69‑1 (MQ=255)
ttttAGTTGGTTGCGTTTATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:452646/60‑1 (MQ=255)
tGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCGGATTAGTTTTCGgtc > 1:932462/1‑54 (MQ=255)
tGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCGGATTAGTTTTCGGTCGTCCCGGTCGACGCt > 1:3071678/1‑69 (MQ=255)
tttATTAATACGCAGCTGCTCATCGCGCGAAAGCGGATTAGtttt < 1:1248155/45‑1 (MQ=255)
aGCTGTTCATCGCGCGAAAGCGGATTAGTTTTCGGTCGTCCCGGTCGACGCTCGTGCGCGAACAGATCt < 1:282117/69‑1 (MQ=255)
aGCTGTTCATCGCGCGAAAGCGGATTAGTTTTCGGTCGTCCCGGTCGACGCTCGTGCGCGAACAGATCt < 1:529066/69‑1 (MQ=255)
|
CGCTTAAGGCCACGTACTTTGTCGCGTTTTAGCTGGTTGCGTTTATTAATACGCAGCTGTTCATCGCGCGAAAGCGGATTAGTTTTCGGTCGTCCCGGTCGACGCTCGTGCGCGAACAGATCT > minE/435045‑435167
|
| 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
