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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
913,779 |
A→G |
L153P (CTG→CCG) |
hcp ← |
hybrid‑cluster [4Fe‑2S‑2O] protein in anaerobic terminal reductases |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 913,779 | 0 | A | G | 96.5%
| 92.8
/ ‑4.6
| 29 | L153P (CTG→CCG) | hcp | hybrid‑cluster [4Fe‑2S‑2O] protein in anaerobic terminal reductases |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (22/6); total (22/7) |
| Fisher's exact test for biased strand distribution p-value = 2.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTG > W3110S.gb/913722‑913846
|
agaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCgag < 1:773645/71‑1 (MQ=255)
agaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCgag < 1:182579/71‑1 (MQ=255)
agaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCgag < 1:3762544/71‑1 (MQ=255)
cgTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTc > 1:1659584/1‑70 (MQ=255)
ttCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCgag < 1:4069099/57‑1 (MQ=255)
ttCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCaa < 1:3761675/71‑1 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:920519/1‑56 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:681433/1‑56 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:1695804/1‑56 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:547984/1‑56 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:2411633/1‑56 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATcgccgc > 1:164178/1‑71 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATcgccgc > 1:241362/1‑71 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATcgccg > 1:1069608/1‑70 (MQ=255)
aCCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:487261/71‑1 (MQ=255)
tACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:3564688/58‑1 (MQ=255)
aCAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAAtta > 1:891976/1‑69 (MQ=255)
aCAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAAtta > 1:414336/1‑69 (MQ=255)
taGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg > 1:2163925/2‑71 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATc > 1:3654739/1‑40 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTa > 1:484067/1‑49 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAAtt > 1:1564284/1‑68 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg > 1:241804/1‑71 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg > 1:1937511/1‑71 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg > 1:199799/1‑71 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg > 1:711387/1‑71 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg > 1:3813507/1‑71 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg > 1:1027075/1‑71 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTct > 1:201121/1‑70 (MQ=255)
cagcggACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCttt < 1:2771457/42‑1 (MQ=255)
agcggACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCt > 1:2450678/1‑70 (MQ=255)
agcggACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCt > 1:2711273/1‑70 (MQ=255)
agcggACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTg < 1:3858252/71‑1 (MQ=255)
agcggACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTg < 1:1484259/71‑1 (MQ=255)
agcggACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTg < 1:2463685/71‑1 (MQ=255)
|
AGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTG > W3110S.gb/913722‑913846
|
| 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
