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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,373,368 |
G→A |
100% |
R480H (CGT→CAT) |
ycjM → |
predicted glucosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,373,368 | 0 | G | A | 83.4%
| 114.9
/ 15.6
| 48 | R480H (CGT→CAT) | ycjM | predicted glucosyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (7/1); new base A (14/26); total (21/27) |
| Fisher's exact test for biased strand distribution p-value = 1.47e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AACGATGAAGCTACATTAAGGCATGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGTAATGCG > W3110S.gb/1373307‑1373437
|
aaCGATGAAGCTACATTAAGGCATGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCa > 1:160368/1‑71 (MQ=255)
aaCGATGAAGCTACATTAAGGCATGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCa > 1:936298/1‑71 (MQ=255)
aaCGATGAAGCTACATTAAGGCATGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCa > 1:424037/1‑71 (MQ=255)
aaCGATGAAGCTACATTAAGGCATGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCa > 1:345590/1‑71 (MQ=255)
aaCGATGAAGCTACATTAAGGCATGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCa > 1:830109/1‑71 (MQ=255)
tGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGataata < 1:1587204/71‑1 (MQ=255)
tGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGataata < 1:866826/71‑1 (MQ=255)
tGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGataata < 1:1940631/71‑1 (MQ=255)
tGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGataata < 1:683685/71‑1 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:1877324/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:1651026/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:595738/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:1447961/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:1292422/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:1289564/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:1941768/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:213478/1‑71 (MQ=255)
cGGTATATCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATaataat > 1:1050199/1‑71 (MQ=255)
tataTCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAAtttt < 1:214551/71‑1 (MQ=255)
tataTCATGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAAtttt < 1:1474412/71‑1 (MQ=255)
atatCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGataa > 1:1418211/1‑63 (MQ=255)
atatCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTa > 1:1809287/1‑71 (MQ=255)
tCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATca > 1:1574103/1‑53 (MQ=255)
tCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCa > 1:510270/1‑71 (MQ=255)
tCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCa > 1:1533243/1‑71 (MQ=255)
tCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCa > 1:1378389/1‑71 (MQ=255)
tCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATCTTACCa > 1:962453/1‑71 (MQ=255)
aTGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCAtt < 1:1552270/71‑1 (MQ=255)
aTGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCAtt < 1:287556/71‑1 (MQ=255)
aTGAGTTGTCGCGTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCAtt < 1:1228162/71‑1 (MQ=255)
gcgTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGataata < 1:1056540/50‑1 (MQ=255)
gcgTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTa < 1:116143/71‑1 (MQ=255)
gcgTTTAATTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTa < 1:731224/71‑1 (MQ=255)
aaTTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCa < 1:91240/70‑1 (MQ=255)
aaTTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCa < 1:747610/70‑1 (MQ=255)
aaTTACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCa < 1:60246/70‑1 (MQ=255)
ttACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAAtt < 1:936243/66‑1 (MQ=255)
ttACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAAtt < 1:4414/66‑1 (MQ=255)
ttACACTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAAtt < 1:737035/66‑1 (MQ=255)
ttACACTTCATCGCAGCCATAACGAGTTTCATCC‑‑ATAATAATTTTACCATTGATACGATTAAtt < 1:975016/64‑1 (MQ=255)
acacTTCATCGCAGCCA‑AACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:1435208/70‑1 (MQ=255)
cacTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:1527969/70‑1 (MQ=255)
cacTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:1420936/70‑1 (MQ=255)
cacTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:884272/70‑1 (MQ=255)
cacTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:1611018/70‑1 (MQ=255)
cacTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:1683544/70‑1 (MQ=255)
cacTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:170237/70‑1 (MQ=255)
cacTTCATCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGt < 1:1109009/70‑1 (MQ=255)
gtcgCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGTTATGCg < 1:1240412/70‑1 (MQ=255)
gtcgCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGTAATGCg < 1:1794970/70‑1 (MQ=255)
|
AACGATGAAGCTACATTAAGGCATGCGGTATATCATGAGTTGTCGCGTTTAATTACACTTCGTCGCAGCCATAACGAGTTTCATCCGGATAATAATTTTACCATTGATACGATTAATTCATCCGTAATGCG > W3110S.gb/1373307‑1373437
|
| 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
