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 |
4,015,328 |
G→A |
40.0% |
H238Y (CAT→TAT) |
yhhI ← |
predicted transposase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,015,328 | 0 | G | A | 40.0%
| 24.1
/ 24.3
| 25 | H238Y (CAT→TAT) | yhhI | predicted transposase |
| Reads supporting (aligned to +/- strand): ref base G (9/6); new base A (7/3); total (16/9) |
| Fisher's exact test for biased strand distribution p-value = 6.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAAGTTCATCAGGGACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTGGATTATTTAA > W3110S.gb/4015298‑4015397
|
tAAGTTCATCAGGGACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGAtt > 1:3753907/1‑71 (MQ=34)
aGTTCATCAGGGACATCGCAAACAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGc > 1:3448386/1‑71 (MQ=21)
ttCATCAGGGACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGc < 1:3665298/69‑1 (MQ=35)
catcaGGGACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTa < 1:2981478/70‑1 (MQ=35)
catcaGGGACATCGCAAACAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTaa > 1:164495/1‑71 (MQ=21)
catcaGGGACATCGCAAACAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTa < 1:3114651/70‑1 (MQ=25)
atcaGGGACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTaa < 1:914261/70‑1 (MQ=35)
tcaGGGACATCGCAAACAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACt > 1:1938433/1‑71 (MQ=21)
aGGGACATCGCAAACAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGt > 1:5057098/1‑71 (MQ=21)
ggACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGtaa < 1:3718714/71‑3 (MQ=21)
ggACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCa < 1:1722315/71‑1 (MQ=34)
tCGCAAACAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTg < 1:4379946/51‑1 (MQ=9)
gCAAACAATGTAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGAt > 1:4675888/1‑51 (MQ=11)
gCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTg > 1:1672663/1‑71 (MQ=34)
gCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTg > 1:4683237/1‑71 (MQ=34)
gCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTg > 1:4619482/1‑71 (MQ=34)
gCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTAACTGATTGCGTAACTGTCATGCTCTg > 1:190132/1‑71 (MQ=21)
gCAAACAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCCCTGATTGCGTAACTGTCATGCTATg < 1:2614148/71‑1 (MQ=11)
gCAAACAATATAAAGACGGATTTCTTCTCTGCC‑TGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTg > 1:1297376/1‑70 (MQ=11)
cAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTg > 1:4421853/1‑70 (MQ=35)
aaCAATATGAAGACGGATCTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTGGat > 1:85790/1‑71 (MQ=255)
cAATATAAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTGGatta > 1:1856634/1‑71 (MQ=21)
atGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGAtt > 1:4587018/1‑43 (MQ=38)
atGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTGGATTAttt < 1:4400070/70‑1 (MQ=35)
tGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTGGATTATTTaa > 1:3975462/1‑71 (MQ=34)
|
TAAGTTCATCAGGGACATCGCAAACAATATGAAGACGGATTTCTTCTCTGCCGTGACTCTTTTCACTGATTGCGTAACTGTCATGCTCTGGATTATTTAA > W3110S.gb/4015298‑4015397
|
| 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
