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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,416,365 |
C→A |
43.8% |
G454G (GGG→GGT) |
yifK ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,416,365 | 0 | C | A | 43.8%
| 28.0
/ 58.7
| 63 | G454G (GGG→GGT) | yifK | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base C (22/13); new base A (3/24); total (25/38) |
| Fisher's exact test for biased strand distribution p-value = 5.79e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAATAAATTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAGATGA > minE/2416299‑2416423
|
aaataaatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTcc < 1:798961/68‑1 (MQ=255)
aaataaatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTcc < 1:2525542/68‑1 (MQ=255)
aaataaatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTcc < 1:3158987/68‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCTTCCAGTTTATGCGCTTTACCGTGGc < 1:2726645/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGc < 1:335283/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGc < 1:2925158/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:229317/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2723660/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2331398/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2525934/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2682571/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:270988/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2754460/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2973606/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:3015496/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:3210296/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:3264055/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:3338482/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:411179/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:568657/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:689976/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:796343/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:1099341/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:1204966/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:1971597/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:1264920/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2119788/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:1698456/69‑1 (MQ=255)
aatTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTACCGTGGc < 1:2196382/69‑1 (MQ=255)
tttGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTTCCGTGGc < 1:2762242/60‑1 (MQ=255)
tGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGcc > 1:700501/1‑68 (MQ=255)
aCGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAAc > 1:789970/1‑69 (MQ=255)
aCGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAAc > 1:2781531/1‑69 (MQ=255)
aCGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAAc > 1:491992/1‑69 (MQ=255)
gctgctTATTCCTCCAGTTTATGCGCTTTACCGTGGCGATTAAGCCCAAAAACTTTATAAATCGCCGTc > 1:710841/1‑69 (MQ=255)
gctgctTATTCCTCCAGTTTATGCGCTTTACCGTGGCGATTAAGCCCAAAAACTTTATAAATCGCCGTc > 1:3212445/1‑69 (MQ=255)
gctgctTATTCCTCCAGTTTATGCGCTTTACCGTGGCGATTAAGCCCAAAAACTTTATAAATCGCCGTc > 1:1206179/1‑69 (MQ=255)
ctgctTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTc < 1:1435891/68‑1 (MQ=255)
ctgctTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTc < 1:1198571/68‑1 (MQ=255)
ctgctTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTc < 1:1974471/68‑1 (MQ=255)
tATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGcc > 1:2698809/1‑69 (MQ=255)
tATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGcc > 1:2610232/1‑69 (MQ=255)
tATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGcc > 1:2229016/1‑69 (MQ=255)
ttCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGt < 1:2638377/60‑1 (MQ=255)
ttCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGt < 1:1138212/60‑1 (MQ=255)
ttCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGt < 1:3059573/60‑1 (MQ=255)
ttCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGt < 1:3158632/60‑1 (MQ=255)
ttCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGt < 1:3131350/60‑1 (MQ=255)
ccAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCTCCAGCa > 1:1768096/1‑66 (MQ=255)
ccAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCa > 1:1602467/1‑66 (MQ=255)
ccAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCa > 1:1957209/1‑66 (MQ=255)
ccAGTTTATGCGCTTTCCCGTGGAGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCa > 1:2533535/1‑66 (MQ=255)
tttATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgat < 1:2727074/69‑1 (MQ=255)
tttATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgat < 1:2731028/69‑1 (MQ=255)
tttATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgat < 1:68898/69‑1 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:2200497/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:3131017/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:2126537/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:2596052/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:1022623/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:2748191/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:1229125/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:2892703/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:2898776/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatga > 1:1939206/1‑69 (MQ=255)
tATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAgatg > 1:1226079/1‑68 (MQ=255)
|
AAATAAATTGCGCGTTTGGTTACGGTTTGTGCGTTTTGCTGCTTATTCCTCCAGTTTATGCGCTTTCCCGTGGCGATTAAGGCCAAAAACTTTATAAATCGCCGTCACCGCCAGCATAAAGATGA > minE/2416299‑2416423
|
| 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
