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 |
997,102 |
G→T |
100% |
A61E (GCA→GAA) |
ynfL ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 997,102 | 0 | G | T | 87.3%
| 95.2
/ 7.0
| 47 | A61E (GCA→GAA) | ynfL | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (1/5); new base T (41/0); total (42/5) |
| Fisher's exact test for biased strand distribution p-value = 3.91e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.05e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AGCGTCATCCACCATAGACAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCAATACACTGCGATTGGTTCGTGCC > minE/997044‑997134
|
aGCGTCATCCAACATAGACAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCaa < 1:2335957/69‑1 (MQ=255)
caccaTAGACAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCAATACACTGCg < 1:1400696/69‑1 (MQ=255)
caccaTAGACAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCAATACACTGCg < 1:475808/69‑1 (MQ=255)
aTAGACAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCAATACACTGCGATTg < 1:3278007/69‑1 (MQ=255)
gACAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCaa < 1:1255813/53‑1 (MQ=255)
cAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCAATACACTGCGATTGGTTCg > 1:1494005/1‑69 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGt > 1:81095/1‑49 (MQ=39)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:694196/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3308746/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3320991/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3390576/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3390791/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3394090/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3415818/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:358180/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:475383/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:640417/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2998706/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:753367/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:77919/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:81209/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:854096/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:954233/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:968974/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:969102/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3195406/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:1210424/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:1232353/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:1531776/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:1549594/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:1654333/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2139250/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2192229/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2214871/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:223124/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:228037/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2344975/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2431441/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2460049/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2615073/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2754481/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:2911496/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:1103950/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:3213693/1‑52 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTACGTGc > 1:2653388/1‑51 (MQ=255)
aaGAAACTGTTTTCCTGCTTCCGTCAGCAATACACTGAGATTGGTCCGTGcc > 1:290937/1‑52 (MQ=255)
aaGAAAATGTTTTCCTGCTTCCGTCAGCAATACACTGCGATTGGTCCGTGcc > 1:606003/1‑52 (MQ=38)
|
AGCGTCATCCACCATAGACAGGATTTGCCGACTATCTGCAAGAAACTGTTTTCCTGCTGCCGTCAGCAATACACTGCGATTGGTTCGTGCC > minE/997044‑997134
|
| 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
