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 |
1,780,767 |
T→C |
41.3% |
I65I (ATT→ATC) |
ypjD → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,780,767 | 0 | T | C | 41.3%
| 12.1
/ 31.6
| 46 | I65I (ATT→ATC) | ypjD | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (13/14); new base C (15/4); total (28/18) |
| Fisher's exact test for biased strand distribution p-value = 6.44e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTTCCCGGTCTGCTGCAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAC > minE/1780704‑1780833
|
tGTTCCCGGTCTGCTGCAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATCgcgc < 1:567339/68‑1 (MQ=255)
tGTTCCCGGTCTGCTGCAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATCgcgc < 1:2190790/68‑1 (MQ=255)
tGTTCCCGGGCTGCTGCAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATCgcgc < 1:496903/68‑1 (MQ=255)
gcAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCa < 1:2145208/67‑1 (MQ=255)
gcAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCa < 1:2052175/67‑1 (MQ=255)
gcAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCa < 1:1438243/67‑1 (MQ=255)
aaaaaaCGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGc < 1:3015904/69‑1 (MQ=255)
aaaaaaCGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGc < 1:2145767/69‑1 (MQ=255)
aaaaaaCGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGc < 1:1825790/69‑1 (MQ=255)
aaaaaaCGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGc < 1:713844/69‑1 (MQ=255)
aaaaaCGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGc < 1:2195848/68‑1 (MQ=255)
cggcggCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGc < 1:743170/63‑1 (MQ=255)
cggcggCTGGCGGCGCATGGCTATTATTTCTGCGGTCATCgcgc < 1:2367841/44‑1 (MQ=255)
gCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCCCGCAATCGCTCTGGAAGCCCGCATCCTGCCCGAc > 1:2731316/1‑69 (MQ=255)
gCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGa > 1:3360703/1‑68 (MQ=255)
gCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGAc > 1:2160081/1‑69 (MQ=255)
attattTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGt < 1:2801466/69‑1 (MQ=255)
attattTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGt < 1:202706/69‑1 (MQ=255)
attattTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGt < 1:1928514/69‑1 (MQ=255)
attTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGa > 1:1578553/1‑68 (MQ=255)
attTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGAt > 1:851681/1‑69 (MQ=255)
attTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGAt > 1:1355433/1‑69 (MQ=255)
attTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGAt > 1:1191100/1‑69 (MQ=255)
attTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGAt > 1:2638163/1‑69 (MQ=255)
tCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAg > 1:630616/1‑68 (MQ=255)
gTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAg > 1:2148472/1‑62 (MQ=255)
gTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaa > 1:797961/1‑69 (MQ=255)
gTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaa > 1:2608765/1‑69 (MQ=255)
tCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa < 1:1294418/69‑1 (MQ=255)
tCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaa < 1:1547548/68‑1 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCGGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:85066/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:996315/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2983295/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:992136/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:864341/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2407096/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:1291655/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2363003/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2283536/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2185059/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2182705/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2140617/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:2055594/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:1879576/1‑69 (MQ=255)
tCATCGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaa > 1:1419126/1‑69 (MQ=255)
cATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACaaaa > 1:991370/1‑69 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCt > 1:386946/1‑42 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAc > 1:1238808/1‑67 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAc > 1:250873/1‑67 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAc > 1:940014/1‑67 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAc > 1:875934/1‑67 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAc > 1:1534847/1‑67 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAc > 1:3374997/1‑67 (MQ=255)
tGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAc > 1:2452378/1‑67 (MQ=255)
|
TGTTCCCGGTCTGCTGCAAAAAAACGGCGGCTGGCGGCGCATGGCTATTATTTCTGCGGTCATTGCGCTGGTCTGCCACGCAATCGCTCTGGAAGCCCGCATCCTGCCCGACGGTGATAGCGGACAAAAC > minE/1780704‑1780833
|
| 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
