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 |
2,609,188 |
G→A |
43.1% |
L76L (CTG→TTG) |
nikE ← |
nickel transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,609,188 | 0 | G | A | 43.1%
| 11.3
/ 29.3
| 44 | L76L (CTG→TTG) | nikE | nickel transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (17/8); new base A (13/6); total (30/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTCGCCACGCCAGCTAATATTCCCCTGCGCGGGCGATTCTAAACCCACCAGCAACCGC > minE/2609126‑2609249
|
cTGAAATACCATTTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTc > 1:645122/1‑69 (MQ=255)
cTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTc > 1:419966/1‑69 (MQ=255)
cTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTc > 1:349043/1‑69 (MQ=255)
cTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTc > 1:3419831/1‑69 (MQ=255)
cTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTc > 1:3167416/1‑69 (MQ=255)
cTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTc > 1:1777011/1‑69 (MQ=255)
cTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTc > 1:2074092/1‑69 (MQ=255)
aTACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccac > 1:2028208/1‑69 (MQ=255)
aCCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgc < 1:571817/64‑1 (MQ=255)
aCCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgc < 1:619794/64‑1 (MQ=255)
aCCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgc < 1:3004084/64‑1 (MQ=255)
ccATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccacgcc > 1:2408594/1‑69 (MQ=255)
ccATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccacgcc < 1:349266/69‑1 (MQ=255)
ccATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccacgcc < 1:695482/69‑1 (MQ=255)
ccATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccacgcc > 1:2514322/1‑69 (MQ=255)
ccATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccacgcc > 1:250724/1‑69 (MQ=255)
ccATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccacgcc > 1:2305269/1‑69 (MQ=255)
cTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgc < 1:323233/59‑1 (MQ=255)
tGAATATCGCGGCGGAACGCTTTTCGCTGGGCGCGATTGAGTTTCGCCAGCGGTTCGCCACGCCAGCt > 1:1468528/1‑68 (MQ=255)
tGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTCGCCACGCCAGCt > 1:876608/1‑68 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:114368/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:559092/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:430568/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:1244141/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:1389446/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:1506691/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:1555281/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:1682117/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:1702888/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:1907399/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:648420/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:2043658/1‑48 (MQ=255)
tatCACGGCGGAACGCTTTACGTTGCGCGCGATTGAGCTTCGCCAACg > 1:730092/1‑48 (MQ=255)
gcggAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTcgccacgc > 1:32005/1‑52 (MQ=255)
gcggAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTCGCCACGCCAGCTAATATTCCCCt > 1:2070171/1‑68 (MQ=255)
tGAGTTTCGCCAGCGGTTCGCCACGCCAGCTAATATTCCCCTGCGCGGGCGATTCTAAAcc < 1:383514/61‑1 (MQ=255)
gAGTTTCGCCAGCGGGTCGCCACGCCAGCTAATATTCCCCTGCGCGGGCGATTCTAAAcc < 1:1218795/60‑1 (MQ=255)
tCGCCAGCGGTTCGCCACGCCAGCTAATATTCCCCTGCGCGGGCGATTCTAAACCCACCAGCAACcgc > 1:2597910/1‑68 (MQ=255)
gCCAACGGTTCGCCGCGCCAGCTAATATTTCCCTGTTAGGGCGACTCTAAccct < 1:2320981/54‑2 (MQ=255)
gCCAACGGTTCGCCGCGCCAGCTAATATTTCCCTGTGAGGGCGACTCTAAccct < 1:3417437/54‑2 (MQ=255)
gCCAACGGTTCGCCGCGCCAGCTAATATTTCCCTGTGAGGGCGACTCTAAccct < 1:3279106/54‑2 (MQ=255)
gCCAACGGTTCGCCGCGCCAGCTAATATTTCCCTGTGAGGGCGACTCTAAccct < 1:299/54‑2 (MQ=255)
gCCAACGGTTCGCCGCGCCAGCTAATATTTCCCTGTGAGGGCGACTCTAAccct < 1:765125/54‑2 (MQ=255)
gCCAACGGTTCGCCGCGCCAGCTAATATTTCCCTGTGAGGGCGACTCTAAccct < 1:2124894/54‑2 (MQ=255)
|
CTGAAATACCATCTGAATATCGCGGCGGAACGCTTTACGCTGGGCGCGATTGAGTTTCGCCAGCGGTTCGCCACGCCAGCTAATATTCCCCTGCGCGGGCGATTCTAAACCCACCAGCAACCGC > minE/2609126‑2609249
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
