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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,012,376 |
G→A |
38.3% |
A500T (GCC→ACC) |
rbbA → |
fused ribosome‑associated ATPases |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,012,376 | 0 | G | A | 38.3%
| 39.4
/ 49.6
| 47 | A500T (GCC→ACC) | rbbA | fused ribosome‑associated ATPases |
| Reads supporting (aligned to +/- strand): ref base G (11/18); new base A (5/13); total (16/31) |
| Fisher's exact test for biased strand distribution p-value = 5.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
CATCTCACTGATGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAACGAAGCCGAAGC > W3110S.gb/4012306‑4012446
|
cATCTCACTGATGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAg < 1:5024293/71‑1 (MQ=255)
tcACTGATGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAgccgc > 1:255265/1‑71 (MQ=255)
tcACTGATGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAaccgc > 1:334467/1‑71 (MQ=255)
tGATGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAg < 1:2032104/70‑1 (MQ=255)
aTGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGt < 1:3066322/69‑1 (MQ=255)
tGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTg > 1:1274045/1‑71 (MQ=255)
cACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAaccgc > 1:3497927/1‑62 (MQ=255)
aCGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGaa < 1:1135382/71‑1 (MQ=255)
cGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTgg > 1:3114172/1‑68 (MQ=255)
ccGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAagag > 1:2094731/1‑71 (MQ=255)
ccGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAagag > 1:2100638/1‑71 (MQ=255)
cGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTgg < 1:1037934/65‑1 (MQ=255)
gAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCa > 1:2614174/1‑71 (MQ=255)
aaGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCAttt < 1:4728771/71‑1 (MQ=255)
aGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTa < 1:4297851/71‑1 (MQ=255)
aGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCATTTa < 1:3160320/71‑1 (MQ=255)
aGTGCTTGCCAGCGGTACACAGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCa < 1:4967222/67‑1 (MQ=255)
aGTGCTTCCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCATTTa < 1:4608984/71‑1 (MQ=255)
cTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCAtt < 1:1054447/65‑1 (MQ=255)
cTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGc > 1:3880827/1‑71 (MQ=255)
gCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCt < 1:1681853/70‑1 (MQ=255)
ccAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTa < 1:3867258/70‑1 (MQ=255)
aGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCATTTATCGCCTAttt < 1:1603358/71‑1 (MQ=255)
gCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAaga < 1:2617626/52‑1 (MQ=255)
gCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAaga < 1:676506/52‑1 (MQ=255)
gCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAaga < 1:1406316/52‑1 (MQ=255)
cGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGc < 1:1546306/71‑1 (MQ=255)
cGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGc < 1:3857376/71‑1 (MQ=255)
cGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGc < 1:4763457/71‑1 (MQ=255)
ggTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCAttt < 1:4068386/57‑1 (MQ=255)
ggTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCa < 1:1707215/71‑1 (MQ=255)
gTACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAg < 1:3919409/71‑1 (MQ=255)
tACACCGCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCAtt < 1:2561131/54‑1 (MQ=255)
cacCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAgg > 1:3050060/1‑69 (MQ=255)
cGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGG‑AGAGGCATTTATCGCCTATTTGCAGGAAGCgg > 1:3995486/1‑71 (MQ=255)
gCAGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCATTTATCGCCTAtt > 1:3105268/1‑59 (MQ=255)
aGGAACTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCATTTATCGCCt < 1:3276122/54‑1 (MQ=255)
aaCTGGTTGAGAAACGCGGAACCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCggcaggg > 1:1289206/1‑71 (MQ=255)
aCTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAaga > 1:3608028/1‑36 (MQ=255)
cTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCggcaggg > 1:3310428/1‑69 (MQ=255)
tGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTAttt < 1:2139214/52‑1 (MQ=255)
gTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCa < 1:640100/36‑1 (MQ=255)
agaAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAAc < 1:4635623/71‑1 (MQ=255)
gaAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAAc < 1:855202/70‑1 (MQ=255)
gaAACGCGGAACCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAAcg < 1:124894/71‑1 (MQ=255)
aaaCGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAAcg > 1:3127693/1‑70 (MQ=255)
cgcgGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCggca > 1:181098/1‑54 (MQ=255)
cgcgGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCggca > 1:1522819/1‑54 (MQ=255)
cgcgGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCggca > 1:638170/1‑54 (MQ=255)
cgcgGAACCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAAc < 1:3024142/66‑1 (MQ=255)
gtaGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGc < 1:3095655/45‑1 (MQ=255)
gccgccAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAAcgaagccgaagc > 1:1852442/1‑71 (MQ=255)
|
CATCTCACTGATGCACGCCGGAAAAGTGCTTGCCAGCGGTACACCGCAGGAACTGGTTGAGAAACGCGGAGCCGCCAGTCTGGAAGAGGCATTTATCGCCTATTTGCAGGAAGCGGCAGGGCAGAGCAACGAAGCCGAAGC > W3110S.gb/4012306‑4012446
|
| 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
