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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,521,063 |
C→T |
100% |
S108F (TCC→TTC) |
yncB → |
predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,521,063 | 0 | C | T | 83.9%
| 72.8
/ 8.0
| 31 | S108F (TCC→TTC) | yncB | predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (0/5); new base T (7/19); total (7/24) |
| Fisher's exact test for biased strand distribution p-value = 5.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.33e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TCATCCTGATTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATCCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGTGTGCTAGG > W3110S.gb/1520998‑1521132
|
tcatcCTGATTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAgtg < 1:1250467/71‑1 (MQ=255)
tcatcCTGATTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAgtg < 1:707732/71‑1 (MQ=255)
tcatcCTGATTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAgtg < 1:690449/71‑1 (MQ=255)
catcCTGATTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAgtg < 1:3144545/70‑1 (MQ=255)
atcCTGATTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAgtggt < 1:922920/71‑1 (MQ=255)
aTTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAGTGGtgatg < 1:209616/69‑1 (MQ=255)
aTTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAGTGGtgatg < 1:2925027/69‑1 (MQ=255)
aTTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAGTGGtgatg < 1:3631480/69‑1 (MQ=255)
aTTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAGTGGtgatg < 1:1610810/69‑1 (MQ=255)
aTTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAGTGGtgatg < 1:1396431/69‑1 (MQ=255)
tGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATTCAGTGGtgatg < 1:3268126/59‑1 (MQ=255)
gATGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCg > 1:3301860/1‑71 (MQ=255)
aTGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTTAAACTTGGCGATCATCCGCAAAATCCATCGt < 1:3604392/71‑1 (MQ=255)
aTGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCATAATCCATCGt < 1:3544021/71‑1 (MQ=255)
aTGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGt < 1:2116942/71‑1 (MQ=255)
aTGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGt < 1:3554365/71‑1 (MQ=255)
aTGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGt < 1:1557720/71‑1 (MQ=255)
tGGCAGGACTATGACATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTg > 1:3440461/1‑71 (MQ=255)
tGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGa < 1:520862/40‑1 (MQ=255)
tGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGa < 1:9683/40‑1 (MQ=255)
tGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGa < 1:1899434/40‑1 (MQ=255)
tGGCAAGACTATGACATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTg > 1:2334029/1‑71 (MQ=255)
gCAAGACTATGACATATTCAGTGGTGATGATCTGGTGaaa > 1:3177374/1‑40 (MQ=255)
gCAAGACTATGACATATTCAGTGGTGATGATCTGGTGaaa > 1:1096030/1‑40 (MQ=255)
aCATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGgtgt > 1:2218516/1‑70 (MQ=255)
aCATATTCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGtgtg > 1:1364129/1‑71 (MQ=255)
cATATCCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGTGTGc < 1:1579156/71‑1 (MQ=255)
tCCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGTGTGCTAgg < 1:2253660/71‑1 (MQ=255)
tCCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGTGTGCTAgg < 1:2240423/71‑1 (MQ=255)
tCCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGTGTGCTAgg < 1:2017360/71‑1 (MQ=255)
tCCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGTGTGCTAgg < 1:172071/71‑1 (MQ=255)
|
TCATCCTGATTATCAGTCTGGCGACTGGGTGCTGGGCTACAGTGGATGGCAAGACTATGACATATCCAGTGGTGATGATCTGGTGAAACTTGGCGATCATCCGCAAAATCCATCGTGGTCGCTGGGTGTGCTAGG > W3110S.gb/1520998‑1521132
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
