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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,594,104 |
G→A |
53.3% |
H138Y (CAT→TAT) |
ypfI ← |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,594,104 | 0 | G | A | 53.3%
| ‑1.1
/ 39.8
| 30 | H138Y (CAT→TAT) | ypfI | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base G (9/5); new base A (10/6); total (19/11) |
| 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 |
AGAATGGCTGGTTTTGCCGCCAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCCAGCGCAGCGAGTCGGCATCAG > W3110S.gb/2594041‑2594169
|
agaATGGCTGGTTTTGCCGCCAGAGGATAGCCTCTTTATCCGCCGTAAGTACGCGTTTGAGATACTgg > 1:2107327/1‑68 (MQ=255)
aTGGCTGGTTTTGCCTCCAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATACTGGACaa < 1:416581/69‑1 (MQ=255)
tGGCTGGTTTTGCCGCCAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATGCTGGACaaa > 1:2487370/1‑69 (MQ=255)
gTTTTGCCGCCAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATACTGGACaa > 1:3039902/1‑62 (MQ=255)
tttGCCGCCAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATACTGGACAAAATgcggcg > 1:1190901/1‑69 (MQ=255)
cgccAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATACTGGACAAAATGCGGCGTCGc < 1:1702228/68‑1 (MQ=255)
gccAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATGCTGGACAAAATGCGGCGTCGc < 1:326082/67‑1 (MQ=255)
tAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAGGGTCAg > 1:199533/1‑69 (MQ=255)
tAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAGGGTCAg > 1:258071/1‑69 (MQ=255)
gCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATACTGGACAAAATgcgg < 1:1170971/50‑1 (MQ=255)
aTCCGCCGTAAGTACGCGTTTGAGATGCTGGACAAAATGCGGCGTCGc > 1:1484751/1‑48 (MQ=255)
aTCCGCCGTAAGTACGCGTTTGAGATGCTGGACAAAATGCGGCGTCGc > 1:3697664/1‑48 (MQ=255)
aTCCGCCGTAAGTACGCGTTTGAGATACTGGACAAAATGCGGCGTCGc > 1:810866/1‑48 (MQ=255)
aTCCGCCGTAAGTACGCGTTTGAGATACTGGACAAAATGCGGCGTCGc > 1:1897080/1‑48 (MQ=255)
aTCCGCCGTAAGTACGCGTTTGAGATACTGGACAAAATGCGGCGTCGCa > 1:2885344/1‑49 (MQ=255)
aTCCGCCGTAAGTACGCGTTTGAGATACTGGACAAAATGCGGCGTCGCa > 1:1351331/1‑49 (MQ=255)
aGTACGCGTTTGAGATACTGGACAAAATGCGGCGTCGCaa > 1:568592/1‑40 (MQ=255)
aGTACGCGTTTGAGATACTGGACAAAATGCGGCGTCGCaa > 1:1797172/1‑40 (MQ=255)
gTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAggg > 1:2093932/1‑38 (MQ=255)
gTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAggg > 1:1287392/1‑38 (MQ=255)
gTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAggg < 1:72526/38‑1 (MQ=255)
gTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAggg < 1:2006526/38‑1 (MQ=255)
gTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAggg > 1:2729260/1‑38 (MQ=255)
gTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAggg < 1:2176736/38‑1 (MQ=255)
gTTTGAGATACTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCCAGCGCAGCGAGTCgg < 1:467921/69‑1 (MQ=255)
tttGAGATACTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCCAGCGCAGCGAGTCgg < 1:3407502/68‑1 (MQ=255)
tGAGATGCTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCCAGCGCAGCGAGTCGGc > 1:3328388/1‑67 (MQ=255)
tGAGATGCTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCCAGCGCAGCGAGTCGGCAt < 1:2949273/69‑1 (MQ=255)
tGAGATACTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCcagcgcagcg < 1:568409/60‑1 (MQ=255)
gaTACTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCCAGCGCAGCGAGTCGGCATCAg > 1:341994/1‑69 (MQ=255)
|
AGAATGGCTGGTTTTGCCGCCAGAGGATAGCCTCGTTATCCGCCGTAAGTACGCGTTTGAGATGCTGGACAAAATGCGGCGTCGCAATAGGGTCAGGGCAATCACTCCAGCGCAGCGAGTCGGCATCAG > W3110S.gb/2594041‑2594169
|
| 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
