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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,873,630 |
C→A |
38.0% |
intergenic (+774/+599) |
ygcE → / ← ygcF |
predicted kinase/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,873,630 | 0 | C | A | 38.0%
| 22.1
/ 13.7
| 21 | intergenic (+774/+599) | ygcE/ygcF | predicted kinase/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (7/6); new base A (5/3); total (12/9) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.43e-01 |
GCTGGCGCGGGGAACACCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTGCTCGGTTTATCCCCGCTGGCGCG > minE/1873568‑1873698
|
gCTGGCGCGGGGAACACCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGCTGGCGCgg > 1:3425924/1‑71 (MQ=255)
cgcgGGGAACACCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGATGGCGCGGGGAac < 1:573945/71‑1 (MQ=255)
cgGGGAACACCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAacac < 1:2474164/71‑1 (MQ=255)
gggAACACCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGGTTATCCCCGCTGGCGCGGGGAACACgg < 1:645242/71‑1 (MQ=255)
aaCACCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGATGGCGCGGGGAACACGGgcg > 1:414778/1‑71 (MQ=255)
cacCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGATGGCGCGGGGAACACGGGCGCa > 1:237225/1‑71 (MQ=255)
acCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCAc > 1:3322285/1‑71 (MQ=255)
cTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACg > 1:187127/1‑70 (MQ=255)
aaTCTATGGACTATTGCTATTCGGTTTATCCCCGCTg > 1:2545313/1‑37 (MQ=255)
aaTCTATGGACTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGcc > 1:515874/1‑71 (MQ=255)
aTCTATGGACTATTGCTATTCGGTTTATCCCCGATGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCg > 1:3605298/1‑71 (MQ=255)
gACTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCt < 1:956894/71‑1 (MQ=255)
aCTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTg < 1:27050/71‑1 (MQ=255)
ttGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTGCTc < 1:285464/70‑1 (MQ=255)
tATTCGGTTTATCCCCGATGGCGCGGGGAACACGGgcg > 1:846845/1‑38 (MQ=255)
ttCGGTTTATCCCCGATGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTAt > 1:1601538/1‑58 (MQ=255)
gTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTGCTCGGTTTATccc > 1:2197886/1‑70 (MQ=255)
tttATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTg < 1:2471406/56‑1 (MQ=255)
tATCCCCGATGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTGCTCGGTTTATCCCCGc < 1:2925278/70‑1 (MQ=255)
tATCCCCGATGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTGCTCGGTTTATCCCCGc < 1:3488144/70‑1 (MQ=255)
cGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTGCTCGGTTTATCCCCGCTGGcgcg > 1:3590826/1‑71 (MQ=255)
|
GCTGGCGCGGGGAACACCTGTTTTCGCAAATCTATGGACTATTGCTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGGGCGCACGGAATACAAAGCCGTGTATCTGCTCGGTTTATCCCCGCTGGCGCG > minE/1873568‑1873698
|
| 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
