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 |
2,019,133 |
C→T |
35.6% |
P340L (CCG→CTG) |
yqhD → |
alcohol dehydrogenase, NAD(P)‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,019,133 | 0 | C | T | 35.6%
| 25.7
/ 20.9
| 42 | P340L (CCG→CTG) | yqhD | alcohol dehydrogenase, NAD(P)‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (16/11); new base T (2/13); total (18/24) |
| Fisher's exact test for biased strand distribution p-value = 8.07e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.62e-01 |
TCCGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTGGAAGAG > minE/2019066‑2019200
|
tCCGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCg > 1:3263226/1‑69 (MQ=255)
ccGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGa > 1:2951231/1‑69 (MQ=255)
ccGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGa > 1:466863/1‑69 (MQ=255)
ccGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGa > 1:446297/1‑69 (MQ=255)
ccGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGa > 1:1957186/1‑69 (MQ=255)
ccGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGa > 1:3421982/1‑69 (MQ=255)
ccGATGATGAGCGTATTGACACCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGa > 1:2619560/1‑69 (MQ=255)
cGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTcc < 1:1530647/69‑1 (MQ=255)
cGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTcc < 1:2273515/69‑1 (MQ=255)
gcaTTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:1584967/67‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTTCTGACCCACCTCTCCg < 1:2118806/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:403755/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:2921929/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:3118372/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:383833/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:2822356/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:548003/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:655346/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:968352/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:2433890/69‑1 (MQ=255)
gTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:2116149/69‑1 (MQ=255)
aTTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCg < 1:1224791/67‑1 (MQ=255)
aTTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGAc < 1:3112798/69‑1 (MQ=255)
aTTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGAc < 1:2061088/69‑1 (MQ=255)
gACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACct > 1:50907/1‑59 (MQ=255)
gACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGa > 1:2617603/1‑65 (MQ=255)
gACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGACTAc > 1:2720402/1‑69 (MQ=255)
gcgATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGACTACGGTCTg < 1:693346/69‑1 (MQ=255)
aaCCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTc < 1:1256899/69‑1 (MQ=255)
ttCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCt > 1:2312092/1‑69 (MQ=255)
ttCTTTGAGCAATTAGGCGTGCTGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCt > 1:3324303/1‑69 (MQ=255)
tCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCtt > 1:1110961/1‑69 (MQ=255)
tCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCtt > 1:2935174/1‑69 (MQ=255)
aGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAAc > 1:2138891/1‑68 (MQ=255)
aGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAAc > 1:2148521/1‑68 (MQ=255)
aGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAAc > 1:2260715/1‑68 (MQ=255)
aGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAAc > 1:1065368/1‑68 (MQ=255)
cGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTgg < 1:371482/68‑1 (MQ=255)
cGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTgg < 1:1135759/68‑1 (MQ=255)
tGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTGGAag < 1:322146/69‑1 (MQ=255)
tGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTGGAag < 1:76343/69‑1 (MQ=255)
gCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTGGAag < 1:2471146/68‑1 (MQ=255)
ccGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTGGAagag < 1:1430244/69‑1 (MQ=255)
ccGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTGGAagag < 1:671737/69‑1 (MQ=255)
|
TCCGATGATGAGCGTATTGACGCCGCGATTGCCGCAACCCGCAATTTCTTTGAGCAATTAGGCGTGCCGACCCACCTCTCCGACTACGGTCTGGACGGCAGCTCCATCCCGGCTTTGCTGAAAAAACTGGAAGAG > minE/2019066‑2019200
|
| 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
