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 |
1,870,835 |
G→A |
55.2% |
S254S (TCG→TCA) |
yqcE → |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,870,835 | 0 | G | A | 55.2%
| 8.8
/ 53.9
| 67 | S254S (TCG→TCA) | yqcE | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base G (15/15); new base A (2/35); total (17/50) |
| Fisher's exact test for biased strand distribution p-value = 3.70e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCCGCGCGCTGTGCGGCCCACTT > minE/1870778‑1870901
|
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcgtc < 1:1772354/69‑3 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:950208/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:3370305/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:1221600/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:1320652/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:379829/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:470148/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:792983/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:1543892/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcggc < 1:1664581/69‑1 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcg > 1:2516861/1‑67 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcg > 1:623171/1‑67 (MQ=255)
cATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTggcg > 1:1584213/1‑67 (MQ=255)
tACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAg > 1:273467/1‑68 (MQ=255)
cATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACAt < 1:1432861/69‑1 (MQ=255)
cTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCg > 1:688472/1‑45 (MQ=255)
cTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATgggg > 1:1571295/1‑69 (MQ=255)
cTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATgggg > 1:918071/1‑69 (MQ=255)
cTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATgggg > 1:1451218/1‑69 (MQ=255)
tACTCCACCAACTATCTGACCTAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:745439/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGTGATtgtg < 1:1032236/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:695013/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:623311/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:695443/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:81234/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:840155/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:3369128/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:326726/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:3154626/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:3126951/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:290895/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2790042/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2744738/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:963823/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2472430/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2320530/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:1125154/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2295750/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:137997/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:1527199/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2233496/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2000796/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2620922/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2036699/69‑1 (MQ=255)
tACTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2127520/69‑1 (MQ=255)
aCTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATtgtg > 1:538294/1‑68 (MQ=255)
aCTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATtgtg > 1:787979/1‑68 (MQ=255)
aCTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATtgtg > 1:1691663/1‑68 (MQ=255)
aCTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATtgtg > 1:2138770/1‑68 (MQ=255)
aCTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATtgtg > 1:2937072/1‑68 (MQ=255)
aCTCCACCAACTATCTGACCGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:2035122/68‑1 (MQ=255)
cGAAATGTACTGCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCcgc < 1:193491/67‑1 (MQ=255)
cGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATtgtg < 1:861203/49‑1 (MQ=255)
cGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCcgc < 1:1099031/67‑1 (MQ=255)
cGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCcgc < 1:3433590/67‑1 (MQ=255)
cGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCcgc < 1:2795324/67‑1 (MQ=255)
cGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCcgc < 1:2279593/67‑1 (MQ=255)
cGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCcgc < 1:1861809/67‑1 (MQ=255)
cGAAATGTACGGCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCcgc < 1:1880078/67‑1 (MQ=255)
gAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCcgcgcg < 1:1633831/69‑1 (MQ=255)
gAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCcgcgcg < 1:3127912/69‑1 (MQ=255)
gAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCcgcgcg < 1:120563/69‑1 (MQ=255)
aTGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCCGCGCGCtg < 1:132556/69‑1 (MQ=255)
acggCATGTCACTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATCTTCCGCGCGTTATGc > 1:3067380/3‑68 (MQ=255)
acggCATGTCACTGGTGGCGGCGAGCTACATGAGGATTGTGATCAACAAAATCTTCCGCGCGTTATGc > 1:71114/3‑68 (MQ=255)
gCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCCGCGCGCTGTGCGGcc > 1:843240/1‑69 (MQ=255)
gCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCCGCGCGCTGTGCGGcc > 1:2215134/1‑69 (MQ=255)
tCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCCGCGCGCTGTGCGGCCCACtt > 1:321762/1‑69 (MQ=255)
|
CATCTACGCCATTCTGAGTTACTCCACCAACTATCTGACCGAAATGTATGGCATGTCGCTGGTGGCGGCGAGCTACATGGGGATTGTGATCAACAAAATATTCCGCGCGCTGTGCGGCCCACTT > minE/1870778‑1870901
|
| 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
