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 |
240,000 |
G→A |
39.0% |
N317N (AAC→AAT) |
araJ ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 240,000 | 0 | G | A | 39.0%
| 17.9
/ 24.4
| 41 | N317N (AAC→AAT) | araJ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base G (5/20); new base A (14/2); total (19/22) |
| Fisher's exact test for biased strand distribution p-value = 2.76e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTGTAGTAACAATATTTGTAGCGGTGCTGAAAGGGCAAATAATCCCGC > minE/239932‑240050
|
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:2443484/69‑1 (MQ=255)
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:1295024/69‑1 (MQ=255)
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:2158927/69‑1 (MQ=255)
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:2153798/69‑1 (MQ=255)
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:3048536/69‑1 (MQ=255)
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:3294598/69‑1 (MQ=255)
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:365147/69‑1 (MQ=255)
ccGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:329774/69‑1 (MQ=255)
cGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:2693588/68‑1 (MQ=255)
cGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCg < 1:1783868/68‑1 (MQ=255)
ggCGCTACCGAGTTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:1854504/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2294620/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:100852/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2734435/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2490298/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2470395/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:1675882/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:288826/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:1392321/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:1867127/69‑1 (MQ=255)
ggCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:1741006/69‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:462791/65‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:1347726/65‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2440933/65‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2476625/65‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:458776/65‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2520404/65‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:2852222/65‑1 (MQ=255)
atccTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:1612992/65‑1 (MQ=255)
aaaCGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTg < 1:628037/54‑1 (MQ=255)
aaaCGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCGTTGGCg < 1:1013738/49‑1 (MQ=255)
cGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAg < 1:2188125/69‑1 (MQ=255)
cGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAg < 1:1659183/69‑1 (MQ=255)
gCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTGTAGTAACAATATTTGTAGCGGTGCTGAAAGGGCa > 1:2836595/1‑69 (MQ=255)
gCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTGTAGTAACAATATTTGTAGCGGTGCTGAAAGGGCa > 1:3350643/1‑69 (MQ=255)
gCACCTAATAACTCTCCGCCTTTGGCGTTTTGTAGTAACAATATTTGTAGCGGTGCTGAAAGGGCAaat > 1:1824074/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACaa > 1:2596149/1‑40 (MQ=38)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCGGTGGTGCTGAAAGGGCAaat > 1:2559719/1‑68 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGGAaata > 1:3210773/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:1725982/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:834407/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:101816/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:1386159/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:1415425/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:399514/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:3306532/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:2147928/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaata > 1:3044471/1‑69 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaat > 1:2696679/1‑68 (MQ=255)
cACCTAATAACTCTCCGCCTTTGGCATTTTGCAGTAACAATATTTGCAGTGGTGCTGAAAGGGCAaat > 1:895045/1‑68 (MQ=255)
aaCTCTCCGCCTTTGGCGTTTTGTAGTAACAATATTTGTAGCGGTGCTGAAAGGGCAAATAATCCcgc > 1:827470/1‑68 (MQ=255)
aaCTCTCCGCCTTTGGCGTTTTGTAGTAACAATATTTGTAGCGGTGCTGAAAGGGCAAATAATCCcgc > 1:2865873/1‑68 (MQ=255)
|
CCGACGGCGCTACCGAGGTTAAACGCTATTTGCCCACCTGCGGCACCTAATAACTCTCCGCCTTTGGCGTTTTGTAGTAACAATATTTGTAGCGGTGCTGAAAGGGCAAATAATCCCGC > minE/239932‑240050
|
| 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
