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 |
1,813,536 |
C→A |
66.6% |
A547A (GCG→GCT) |
alaS ← |
alanyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,813,536 | 0 | C | A | 66.6%
| 29.8
/ 28.4
| 42 | A547A (GCG→GCT) | alaS | alanyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base C (7/7); new base A (10/18); total (17/25) |
| Fisher's exact test for biased strand distribution p-value = 5.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 |
CAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATT > minE/1813470‑1813600
|
cAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACcgc > 1:2428848/1‑69 (MQ=255)
cAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACcgc > 1:1257541/1‑69 (MQ=255)
cAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACcgc > 1:268037/1‑69 (MQ=255)
cAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACcgc > 1:2744393/1‑69 (MQ=255)
cAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACcgc > 1:2801252/1‑69 (MQ=255)
cAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACcgc > 1:1910385/1‑69 (MQ=255)
cAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACcgc > 1:2036768/1‑69 (MQ=255)
gCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCg > 1:2392747/1‑68 (MQ=255)
gCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCg > 1:1750110/1‑68 (MQ=255)
cGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCgc > 1:1404634/1‑68 (MQ=255)
aaTACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCgcagc < 1:3273664/69‑1 (MQ=255)
tACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCgcag > 1:3194097/1‑66 (MQ=255)
tACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCaa > 1:2617456/1‑69 (MQ=255)
tACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCaa > 1:789795/1‑69 (MQ=255)
tACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCaa > 1:69129/1‑69 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACACGCAGCAAGTTTAcc < 1:1169021/69‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:341646/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:2779429/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:418370/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:641314/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:810181/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:857682/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:928467/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:255201/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:2470152/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:243321/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:2353467/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:2257522/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:1201185/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:1354247/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:1445479/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:1716232/56‑1 (MQ=255)
gcgACGAGCCTCATCAACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACACg < 1:2580648/56‑1 (MQ=255)
gacgaGCCTCATCAACATCAGCCTTAACCGCGTCGCCCACTTTCAGAGAACCCgcagc < 1:3261298/58‑1 (MQ=255)
tcatcaACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGACCa < 1:2106596/69‑1 (MQ=255)
tcatcaACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGACCa < 1:2974442/69‑1 (MQ=255)
tcatcaACATCAGCCTGCACAGCTTCGCCCACTTTCAGAGAAc > 1:627428/1‑43 (MQ=38)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:2435171/1‑68 (MQ=255)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:1276651/1‑68 (MQ=255)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:735518/1‑68 (MQ=255)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:40017/1‑68 (MQ=255)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:1850125/1‑68 (MQ=255)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:3346308/1‑68 (MQ=255)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:1880341/1‑68 (MQ=255)
tcatcaACATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAcc > 1:2212360/1‑68 (MQ=255)
tcatcaACAACAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGAc > 1:2018279/1‑67 (MQ=255)
aCATCAGCCTGCACAGCGTCGCCCACTTTCAGAGAACCCg < 1:2894774/40‑1 (MQ=255)
gCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTAtt < 1:1372798/69‑1 (MQ=255)
aCCGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTAtt < 1:1018976/67‑1 (MQ=255)
|
CAGGTGCGTTGCGGAGTGATTCAGACGAATACGGGCGCGACGAGCCTCATCAACATCAGCCTGCACCGCGTCGCCCACTTTCAGAGAACCCGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATT > minE/1813470‑1813600
|
| 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
