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 |
281,512 |
C→T |
35.1% |
S11F (TCC→TTC) |
yagE → |
predicted lyase/synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 281,512 | 0 | C | T | 35.1%
| 62.3
/ 54.9
| 57 | S11F (TCC→TTC) | yagE | predicted lyase/synthase |
| Reads supporting (aligned to +/- strand): ref base C (20/17); new base T (9/11); total (29/28) |
| Fisher's exact test for biased strand distribution p-value = 5.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
TTAAATAAACGAACGCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGCCAGCTCGATAA > W3110S.gb/281444‑281578
|
ttAAATAAACGAACGCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCcg < 1:1113284/71‑1 (MQ=255)
taaataaaCGAACGCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTcgc > 1:2613515/1‑71 (MQ=255)
taaataaaCGAACGCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTcgc > 1:1564438/1‑71 (MQ=255)
taaataaaCGAACGCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCcgc > 1:4561368/1‑71 (MQ=255)
taaataaaCGAACGCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCcg < 1:2130411/70‑1 (MQ=255)
aataaaCGAACGCTGTTCTATAATGTACAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCgt > 1:2937744/1‑71 (MQ=255)
aacgaacgCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTCGCgttgtt < 1:440020/71‑1 (MQ=255)
aacgaacgCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTCGCgttgtt < 1:4134836/71‑1 (MQ=255)
aacgaacgCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCgttgtt < 1:1321301/71‑1 (MQ=255)
cTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGaa > 1:2537110/1‑71 (MQ=255)
ttCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTCGCGTTGTTCACGGGAATc < 1:3936171/70‑1 (MQ=255)
ttCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTCGCGTTGTTCACGGGAATc < 1:4599203/70‑1 (MQ=255)
ttCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTCGCGTTGTTCACGGGAATc < 1:1060852/70‑1 (MQ=255)
ttCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAAt < 1:3051892/69‑1 (MQ=255)
ttCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAAt < 1:2500371/69‑1 (MQ=255)
tCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTTCGCGTTGTTCACGGGAATCa > 1:1722652/1‑70 (MQ=255)
tCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCAt > 1:4330783/1‑71 (MQ=255)
taATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTc > 1:2684504/1‑56 (MQ=255)
aTGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCa < 1:3098020/64‑1 (MQ=255)
aTGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCa < 1:3939169/64‑1 (MQ=255)
tGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCt < 1:506249/71‑1 (MQ=255)
aGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGtc > 1:156529/1‑71 (MQ=255)
gAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCa > 1:4959120/1‑50 (MQ=255)
gAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCa > 1:3861728/1‑59 (MQ=255)
cAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCa > 1:3855969/1‑47 (MQ=255)
ttCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCAttttt < 1:4498779/71‑1 (MQ=255)
ttCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCAttttt < 1:478625/71‑1 (MQ=255)
tCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACg > 1:1803/1‑40 (MQ=255)
gCAAGGAGATCTCATGCCGCAGTTCGCGTTGTTCAc > 1:633848/1‑36 (MQ=255)
gCAAGGAGATCTCATGCCGCAGTTCGCGTTGTTCAc > 1:323982/1‑36 (MQ=255)
gCAAGGAGATCTCATGCCGCAGTTCGCGTTGTTCAc > 1:185258/1‑36 (MQ=255)
cAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTccacca > 1:138058/1‑61 (MQ=255)
cAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTccacca > 1:2861817/1‑61 (MQ=255)
cAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTccacca > 1:2002334/1‑61 (MQ=255)
aGGAGATCTCATGCCGCAGTTCGCGTTGTTCACGGGaa > 1:322524/1‑38 (MQ=255)
aGGAGATCTCATGCCGCAGTTCGCGTTGTTCACGGGAATCATTCCCCCt < 1:1430523/49‑1 (MQ=255)
aGGAGATCTCATGCCGCAGTTCGCGTTGTTCACGGGAATCATTCCCCCTGtctc > 1:1450580/1‑54 (MQ=255)
ggAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTccacca < 1:2376831/58‑1 (MQ=255)
ggAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTAccgcc < 1:3624436/69‑1 (MQ=255)
ggAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTAccgcc < 1:4778421/69‑1 (MQ=255)
gagaTCTCATGCCGCAGTTCGCGTTGTTCACGGGAATCATTccc > 1:606002/1‑44 (MQ=255)
agaTCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACg > 1:4815429/1‑71 (MQ=255)
aTCTCATGCCGCAGTTCGCGTTGTTCACGGGAATCATTCCCCCt < 1:607206/44‑1 (MQ=255)
aTCTCATGCCGCAGTTCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCAttttt < 1:3432388/59‑1 (MQ=255)
aTCTCATGCCGCAGTTCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCAttttt < 1:4721943/59‑1 (MQ=255)
aTCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTccacca < 1:3519482/54‑1 (MQ=255)
ctcATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCAtttt > 1:2089980/1‑56 (MQ=255)
ctcATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCAttt > 1:3672794/1‑55 (MQ=255)
ctcATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGccg > 1:3607966/1‑70 (MQ=255)
tcATGCCGCAGTCCGCGTTGTTCACGGGAATCAtt > 1:2145923/1‑35 (MQ=255)
tcATGCCGCAGTCCGCGTTGTTCACGGGAATCAtt > 1:3441225/1‑35 (MQ=255)
cATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGCCAg > 1:3964814/1‑70 (MQ=255)
aTGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGcc < 1:240697/67‑1 (MQ=255)
tGCCGCAGTTCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGCCAGCTc < 1:2319499/71‑1 (MQ=255)
tGCCGCAGTTCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGCCAGCTc < 1:403982/71‑1 (MQ=255)
ccGCAGTCCGCGTTGTTCAGGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGCCAGCTCGa < 1:1755981/71‑1 (MQ=255)
cAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGCCAGCTCGATaa < 1:2723815/71‑1 (MQ=255)
|
TTAAATAAACGAACGCTGTTCTATAATGTAGAACAAAATGATTCAGCAAGGAGATCTCATGCCGCAGTCCGCGTTGTTCACGGGAATCATTCCCCCTGTCTCCACCATTTTTACCGCCGACGGCCAGCTCGATAA > W3110S.gb/281444‑281578
|
| 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
