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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,832,108 |
C→T |
22.8% |
T124T (ACG→ACA) |
astA ← |
arginine succinyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,832,108 | 0 | C | T | 22.8%
| 116.5
/ 30.6
| 57 | T124T (ACG→ACA) | astA | arginine succinyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (22/22); new base T (6/7); total (28/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
AACATAAAGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGTTATA > W3110S.gb/1832040‑1832170
|
aacataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGc > 1:1268490/1‑69 (MQ=255)
aacataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGc > 1:2020592/1‑69 (MQ=255)
aacataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGc > 1:3607805/1‑69 (MQ=255)
aacataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGc > 1:3276880/1‑69 (MQ=255)
cataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCTGGTCGAGAAACAGCg < 1:1552669/68‑1 (MQ=255)
ataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTg < 1:1493127/69‑1 (MQ=255)
taaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTg > 1:1253968/1‑68 (MQ=255)
aaGCGCGATTTCGACAGCAAATAGCCGTTGCCGTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGcac > 1:257386/1‑69 (MQ=255)
aaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGcac > 1:203256/1‑69 (MQ=255)
aaGCGCGATTTCGACAGAAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGcac > 1:300551/1‑69 (MQ=255)
cgcgATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGc > 1:2606336/1‑69 (MQ=255)
cgATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTc < 1:2771880/69‑1 (MQ=255)
tttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgct < 1:1709177/69‑1 (MQ=255)
tttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgct < 1:2680550/69‑1 (MQ=255)
tttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgct < 1:695342/69‑1 (MQ=255)
tttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgct < 1:23750/69‑1 (MQ=255)
tttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgct < 1:2123913/69‑1 (MQ=255)
tttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgct < 1:437877/69‑1 (MQ=255)
tttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgct < 1:604471/69‑1 (MQ=255)
gCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCgg < 1:69978/69‑1 (MQ=255)
aaaTAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGgt > 1:1027948/1‑68 (MQ=255)
aaaTAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGgt > 1:2267079/1‑68 (MQ=255)
aTAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGtgtg < 1:1642711/69‑1 (MQ=255)
tAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGa > 1:267551/1‑69 (MQ=255)
aGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTG‑‑CAGCTCGCTGCTGCCGGTGTGATc > 1:1348077/1‑68 (MQ=255)
gCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATc < 1:1838167/69‑1 (MQ=255)
cGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGt > 1:3337943/1‑69 (MQ=255)
cGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGt > 1:2129443/1‑69 (MQ=255)
cGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGt > 1:1734891/1‑69 (MQ=255)
cGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:1803761/69‑1 (MQ=255)
cGTTGCCCTCTTTGCGCCAGGCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:2949082/69‑1 (MQ=255)
ttGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGtt < 1:2076934/68‑1 (MQ=255)
ttGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTa < 1:1813388/69‑1 (MQ=255)
ttGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTa < 1:502509/69‑1 (MQ=255)
gCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTa > 1:2324912/1‑67 (MQ=255)
gCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTa > 1:1915411/1‑67 (MQ=255)
tctTTGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGt > 1:3722912/1‑61 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTgaga > 1:22571/1‑67 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTgaga > 1:2227460/1‑67 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTgaga > 1:2174575/1‑67 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTgaga > 1:1548267/1‑67 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTgaga > 1:383783/1‑67 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCg > 1:2122994/1‑40 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCg > 1:1561664/1‑40 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCg > 1:1762965/1‑40 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGtgtg > 1:1355018/1‑54 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGtgtg > 1:3686235/1‑54 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGtgtg > 1:1932867/1‑54 (MQ=255)
tttGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGtgtg > 1:661467/1‑54 (MQ=255)
gTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCgg < 1:3317668/69‑1 (MQ=255)
tCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:418896/49‑1 (MQ=255)
tCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:3216094/49‑1 (MQ=255)
tCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:3543445/49‑1 (MQ=255)
tCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:347009/49‑1 (MQ=255)
tCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:1405942/49‑1 (MQ=255)
tCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGc < 1:442895/69‑1 (MQ=255)
tCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGGTACTGAGAAACAGCGTCGGc < 1:1041973/69‑1 (MQ=255)
cGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGgtgt > 1:3231212/1‑41 (MQ=255)
gaAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGTta < 1:385687/68‑1 (MQ=255)
gaAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGTta < 1:831856/68‑1 (MQ=255)
aaaCAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGTtata < 1:3317996/69‑1 (MQ=255)
|
AACATAAAGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGTTATA > W3110S.gb/1832040‑1832170
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
