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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,670,644 |
A→G |
20.0% |
I232T (ATT→ACT) |
yfgL ← |
protein assembly complex, lipoprotein component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,670,644 | 0 | A | G | 20.0%
| 81.0
/ 17.1
| 40 | I232T (ATT→ACT) | yfgL | protein assembly complex, lipoprotein component |
| Reads supporting (aligned to +/- strand): ref base A (12/20); new base G (3/5); total (15/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
GTTAACAACGACGGGAGTCGTGTCAACATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCC > minE/1670574‑1670710
|
gTTAACAACGACGGGAGTCGTGTCAACATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGaaa < 1:2932110/71‑1 (MQ=255)
gAGTCGTGTCAACATCGCTCAGACGGTCAATTTTGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCaa < 1:2708139/71‑1 (MQ=255)
gAGTCGTGTCAACATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCaa < 1:31849/71‑1 (MQ=255)
tCGTGTCAACATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAatc < 1:582431/71‑1 (MQ=255)
tgtCAACATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACgct < 1:3140006/57‑1 (MQ=255)
tCAACATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTg > 1:23938/1‑71 (MQ=255)
cATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAGTACGCTGCTGCCAAATCATCTGGccc < 1:3629419/71‑1 (MQ=255)
aTCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCtgctgc < 1:1910444/55‑1 (MQ=255)
aTCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCt > 1:145307/1‑65 (MQ=255)
tCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGctgctg < 1:2450292/53‑1 (MQ=255)
gCTCAGACGGTCAATTTCGGTATAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGtt > 1:856422/1‑71 (MQ=255)
gCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATAc > 1:2382113/1‑44 (MQ=255)
gCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGtt > 1:2625904/1‑71 (MQ=255)
cAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAGTACGCTGCTGCCAAATCATCTGGCCCTGTTCCa > 1:3561592/1‑71 (MQ=255)
cAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTcc < 1:2698825/70‑1 (MQ=255)
aGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCTAAATCATCTGGCCCTGTTCCa < 1:1665107/70‑1 (MQ=255)
aGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTcc < 1:1826131/69‑1 (MQ=255)
aCGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAatca > 1:1449130/1‑53 (MQ=255)
gTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAatcat < 1:618855/51‑1 (MQ=255)
tCAATTTCGGTAGAACCGGTCGCCTGGGAAGTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCAc > 1:1373405/1‑71 (MQ=255)
cAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACt > 1:200169/1‑71 (MQ=255)
aaTTTCGGTAGAACCGGTCGCCTGGGAAGTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATc > 1:1598695/1‑64 (MQ=255)
tttCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCaa < 1:567899/41‑1 (MQ=255)
tttCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAg < 1:3708827/64‑1 (MQ=255)
ttCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCaaa > 1:478751/1‑41 (MQ=255)
ggTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGa < 1:1570755/71‑1 (MQ=255)
gTAGAACCGGTCGCCTGGGAAGTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAg < 1:327016/59‑1 (MQ=255)
gTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAatc < 1:805068/39‑1 (MQ=255)
tAGAACCGGTCGCCTGGGAAGTACGCTGCTGCCAAATCATCTGGCCCTGTTCCa < 1:672792/54‑1 (MQ=255)
tAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCt < 1:704833/67‑1 (MQ=255)
aCCGGTCGCCTGGGAAGTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGAc < 1:3078395/71‑1 (MQ=255)
aCCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGAc < 1:2849015/71‑1 (MQ=255)
ggTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCAt < 1:2813622/71‑1 (MQ=255)
gTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGa > 1:3682756/1‑66 (MQ=255)
gCCTGGGAAGTACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCt < 1:2599830/56‑1 (MQ=255)
gCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATc > 1:1270500/1‑71 (MQ=255)
ccTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCg < 1:1260442/71‑1 (MQ=255)
tGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTgc < 1:1913076/50‑1 (MQ=255)
gggAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAg < 1:3654045/43‑1 (MQ=255)
ggAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATGAGCACTGCGCTGACGCGACCATTATCGcccc > 1:1580169/1‑71 (MQ=255)
ggAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGcccc > 1:2396935/1‑71 (MQ=255)
|
GTTAACAACGACGGGAGTCGTGTCAACATCGCTCAGACGGTCAATTTCGGTAGAACCGGTCGCCTGGGAAATACGCTGCTGCCAAATCATCTGGCCCTGTTCCATCAGCACTGCGCTGACGCGACCATTATCGCCCC > minE/1670574‑1670710
|
| 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
