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 |
1,525,931 |
C→T |
84.8% |
E309E (GAG→GAA) |
fabB ← |
3‑oxoacyl‑[acyl‑carrier‑protein] synthase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,525,931 | 0 | C | T | 84.8%
| 61.0
/ 3.2
| 39 | E309E (GAG→GAA) | fabB | 3‑oxoacyl‑[acyl‑carrier‑protein] synthase I |
| Reads supporting (aligned to +/- strand): ref base C (4/2); new base T (13/20); total (17/22) |
| Fisher's exact test for biased strand distribution p-value = 3.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.92e-01 |
CGGTCATGGCTTTGGTTGCAGAAATCGCCGGGCTCTTATCGCCGAACACTTCACGGATAGCTGCCAGCTCTTTCACGTCGCCAACCGGAGTCGAAGTACCGTGGGAGTTCAGGTAATCGATTGGGGTATCAAC > minE/1525864‑1525996
|
cGGTCATGGCTTTGGTTGCAGAAATCGCCGGGCTCTTATCGCCGAACACTTCACGGATAGCTGCCAGct > 1:1436401/1‑69 (MQ=255)
cGGTCATGGCTTTGGTTGCAGAAATCGCCGGGCTCTTATCGCCGAACACTTCACGGATAGCTGCCAGct > 1:3350954/1‑69 (MQ=255)
ggCTTTGGTTGCAGAAATCGCCGGGCTCTTATCGCCGAACACTTCACGGATAGCTGCCAGCTCTTTCAc > 1:934928/1‑69 (MQ=255)
gggCTCTTATCGCCGAACACTTCACGGATAGCTGCCAGCTCTTTCACGTCGCCAACCGGAGTCGAAGTa < 1:1212570/69‑1 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCa > 1:2904024/1‑43 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:1034582/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:2768859/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:231724/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:2174945/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:1978799/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:188908/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:298593/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:3290757/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:11365/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:1087341/1‑68 (MQ=255)
ctctTATCGCCGAACACTTCACGGATAGCTGCAAGTTAttt > 1:3249330/1‑41 (MQ=37)
ctctTATCGCCGAACACTTCACGGATAGCAGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTAcc > 1:1974557/1‑68 (MQ=255)
gCCGAACACTTCACGGATAGCTGCCAGCTCTTTCACGTCGCCAACCGGAGTCGAAGTACCGTggg > 1:98699/1‑65 (MQ=255)
cacTTCACGGATAGCTGCCAGCTCTTTCACGTCGCCAACCGGAGTCGAAGTACCGTGGGAGTTCAGGTa < 1:661929/69‑1 (MQ=255)
acTTCACGGATAGCTGCCAGCTCTTTCACGTCGCCAACCGGAGTCGAAGTACCGTGGGAGTTCAGGTaa > 1:3093953/1‑69 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAAGCGGAGTCGAAGTACGATGAGAGTTCa < 1:103747/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:338688/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:1121523/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:899351/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:879397/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:687456/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:621921/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:369628/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:356029/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:2413806/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:1449210/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:1512845/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:1561344/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:1580828/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:2905933/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:1913049/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:288190/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:2640326/58‑1 (MQ=255)
cGGATAGCTGCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACAATGAGAGTTCa < 1:536045/58‑1 (MQ=255)
cGGATAGCTCCCAGTTCTTTCACGTCGCCAACCGGAGTCGAAGTACCATGAGAGTTCa < 1:629220/58‑1 (MQ=255)
aGCTCTTTCACGTCGCCAACCGGAGTCGAAGTACCGTGGGAGTTCAGGTAATCGATTGGGGTATCAAc > 1:2390754/1‑68 (MQ=255)
|
CGGTCATGGCTTTGGTTGCAGAAATCGCCGGGCTCTTATCGCCGAACACTTCACGGATAGCTGCCAGCTCTTTCACGTCGCCAACCGGAGTCGAAGTACCGTGGGAGTTCAGGTAATCGATTGGGGTATCAAC > minE/1525864‑1525996
|
| 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
