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 |
2,283,154 |
C→T |
30.8% |
E248E (GAG→GAA) |
oxyR ← |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,283,154 | 0 | C | T | 30.8%
| 49.1
/ 23.8
| 55 | E248E (GAG→GAA) | oxyR | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base C (19/19); new base T (9/8); total (28/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAATAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCAG > minE/2283093‑2283219
|
cAATAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGTTCcggcg < 1:1079633/69‑1 (MQ=255)
cAATAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGTTCcggcg < 1:3253057/69‑1 (MQ=255)
cAATAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGTTCcggcg < 1:2646686/69‑1 (MQ=255)
cAATAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGTTCcggcg < 1:3436442/69‑1 (MQ=255)
cAATAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGTTCcggcg < 1:704233/69‑1 (MQ=255)
aaTAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGTTCcggcg < 1:3330473/68‑1 (MQ=255)
aaTAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGTTCcggcg < 1:3017522/68‑1 (MQ=255)
gTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGcaca > 1:1428828/1‑69 (MQ=255)
gTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGcaca > 1:835048/1‑69 (MQ=255)
gTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGcaca > 1:1387008/1‑69 (MQ=255)
gTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGcaca > 1:2254894/1‑69 (MQ=255)
gTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGcaca > 1:1903362/1‑69 (MQ=255)
gTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGcaca > 1:3117831/1‑69 (MQ=255)
gTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGcaca > 1:3239248/1‑69 (MQ=255)
gTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCt > 1:601213/1‑68 (MQ=255)
gTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCt > 1:577955/1‑68 (MQ=255)
gTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCt > 1:2069685/1‑68 (MQ=255)
gTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCt > 1:355636/1‑68 (MQ=255)
ccGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGc > 1:1578075/1‑68 (MQ=255)
tGCACGGCTGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:2089474/67‑1 (MQ=255)
tGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:3277889/67‑1 (MQ=255)
tGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:1434045/67‑1 (MQ=255)
tGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:286181/67‑1 (MQ=255)
tGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:2471907/67‑1 (MQ=255)
tGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:1443852/67‑1 (MQ=255)
tGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:779765/67‑1 (MQ=255)
tGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:1573976/67‑1 (MQ=255)
gCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:3073284/66‑1 (MQ=255)
cAGATATACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTTAAGTGATCCCGCt < 1:2894804/69‑1 (MQ=255)
cAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:3039159/69‑1 (MQ=255)
cAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:2296315/69‑1 (MQ=255)
cAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:1362127/69‑1 (MQ=255)
cAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:2269827/69‑1 (MQ=255)
cAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:444380/69‑1 (MQ=255)
cAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:1870695/69‑1 (MQ=255)
cAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:145157/69‑1 (MQ=255)
aGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCt < 1:3321838/68‑1 (MQ=255)
tAAACAGCCACATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTa > 1:442648/1‑52 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGTCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:267848/1‑69 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTAcc > 1:2705780/1‑68 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:3313667/1‑69 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:791286/1‑69 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:75212/1‑69 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:1323636/1‑69 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:3245939/1‑69 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:2312467/1‑69 (MQ=255)
tAAACAACCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGCAGTAAAGTGATCCCGCTACCt > 1:1373282/1‑69 (MQ=255)
aaaCAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTaaa > 1:2619391/1‑53 (MQ=255)
aaaCAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTg > 1:2698580/1‑69 (MQ=255)
aaaCAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTg > 1:2198121/1‑69 (MQ=255)
aaaCAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTg > 1:206399/1‑69 (MQ=255)
aaaCAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTg > 1:2005949/1‑69 (MQ=255)
aaaCAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTg > 1:175146/1‑69 (MQ=255)
acCCCATCGCGTTTGCGTTCCGGCGGCACAGCCAGCGCAGGAAGTAAAGTGATCCCGCTACCTgccgcc < 1:2908531/69‑1 (MQ=255)
gTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGt < 1:1569622/40‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCTCTACCTGCCGCCACCATGTTGCGCag < 1:2469866/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:892205/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:8495/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:1344824/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:1607514/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:715381/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:642621/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:576313/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:543626/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:2492798/68‑1 (MQ=255)
cgcTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCag < 1:3099489/68‑1 (MQ=255)
|
CAATAGTGCGGCGTGGTTCCGGCTTAATGCACGGCAGATAAACAACCCCATCGCGTTTGCGCTCCGGCGGCACAGCCAGCGCTGGCAGTAAAGTGATCCCGCTACCTGCCGCCACCATGTTGCGCAG > minE/2283093‑2283219
|
| 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
