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 |
2,247,196 |
T→G |
80.5% |
V303V (GTT→GTG) |
thiC → |
thiamin (pyrimidine moiety) biosynthesis protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,247,196 | 0 | T | G | 80.5%
| 109.6
/ 15.2
| 56 | V303V (GTT→GTG) | thiC | thiamin (pyrimidine moiety) biosynthesis protein |
| Reads supporting (aligned to +/- strand): ref base T (6/5); new base G (23/22); total (29/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GATTTTGCGTAACAGCCCGGTGCCGATCGGTACAGTGCCGATCTACCAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCTTACCTGGGAAGCGTTCCGCGACACGCTGCTGGAACAGGCCGAGCAAGG > minE/2247133‑2247264
|
gATTTTGCGTAACAGCCCGGTGCCGATCGGTACAGTGCCGATCTACCAGGCGCTGGAGAAGGTTAACgg < 1:2026559/69‑1 (MQ=255)
gATTTTGCGTAACAGCCCGGTGCCGATCGGTACAGTGCCGATCTACCAGGCGCTGGAGAAGGTTAACgg < 1:1449836/69‑1 (MQ=255)
ccGGTGCCGATCGGTACAGTGCCGATCTACAAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCtt < 1:919551/69‑1 (MQ=255)
gCCGATCGGTACAGTGCCGATCTACCAGGCGCTGGAGAAGGTTAACGGGATCGCCGaa > 1:3325659/1‑58 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTTGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:429437/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAATGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3394317/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAATGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3398121/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3029456/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:1054879/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:462792/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3392697/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:2850322/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:2634740/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:344877/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3059565/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:2293447/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:224455/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3134693/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3149009/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:1808382/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:1808094/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:636367/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:1558868/68‑1 (MQ=255)
gATCGGTACAGTGCCGATCTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:854296/68‑1 (MQ=255)
cGGTACAGTGCCGATCTACCAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCTTACCTGGGAAGc > 1:80103/1‑69 (MQ=255)
cGGTACAGTGCCGATCTACCAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCTTACCTGGGAAGc > 1:2986796/1‑69 (MQ=255)
gTGCCGATCTACCAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCTTACCTGGGAAGCGTTCcgc > 1:1277055/1‑69 (MQ=255)
gTGCCGATCTACAAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAg > 1:609717/1‑46 (MQ=255)
gTGCCGATCTAACAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCTTACCTGGGAAGCGTTCcgc > 1:3306537/1‑69 (MQ=255)
cGATCTACCAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCtt < 1:1271413/47‑1 (MQ=255)
cTACCAGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:1457261/50‑1 (MQ=255)
aGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCTTACCTGGGAAGCGTTCCGCGACACGCTGCTgg < 1:1854687/69‑1 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTcc > 1:3276893/1‑54 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTTCGCGACACCCTGCTgg > 1:1388572/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACcctgctcg > 1:1174307/1‑67 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:3385221/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:437203/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:568201/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:3012144/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:3196795/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:3173541/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:3245168/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:3045386/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:2897907/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:2872015/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:137709/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:2414550/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:1465871/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:2221891/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:1990573/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:1899298/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:1827147/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:1781720/1‑69 (MQ=255)
aGGCACTGGAGAAGGTGAACGGGATCGCTGAAGATATTACCTGGGAAGTCTTCCGCGACACCctgctg > 1:970993/1‑68 (MQ=255)
aGGCACAGGAGAAGGTGAACGGGATCGCTGAAGATCTTACCTGGGAAGTCTTCCGCGACACCCTGCTgg > 1:435419/1‑69 (MQ=255)
ggAGAAGGTGAACGGGATCGCTGAAGATCTTACCTggg < 1:3170813/38‑1 (MQ=38)
tAACGGGATCGCCGAAGATCTTACCTGGGAAGCGTTCCGCGACACGCTGCTGGAACAGGCCGAGCAAgg < 1:1745843/69‑1 (MQ=255)
tAACGGGATCGCCGAAGATCTTACCTGGGAAGCGTTCCGCGACACGCTGCTGGAACAGGCCGAGCAAgg < 1:2567208/69‑1 (MQ=255)
|
GATTTTGCGTAACAGCCCGGTGCCGATCGGTACAGTGCCGATCTACCAGGCGCTGGAGAAGGTTAACGGGATCGCCGAAGATCTTACCTGGGAAGCGTTCCGCGACACGCTGCTGGAACAGGCCGAGCAAGG > minE/2247133‑2247264
|
| 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
