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 |
2,278,430 |
G→A |
39.7% |
L107L (CTG→TTG) |
btuB ← |
vitamin B12/cobalamin outer membrane transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,278,430 | 0 | G | A | 39.7%
| 36.9
/ 51.2
| 78 | L107L (CTG→TTG) | btuB | vitamin B12/cobalamin outer membrane transporter |
| Reads supporting (aligned to +/- strand): ref base G (36/11); new base A (17/14); total (53/25) |
| Fisher's exact test for biased strand distribution p-value = 5.16e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGCTGGACAAGCGCAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATAAAAATAG > minE/2278371‑2278495
|
acGCTGGACAAGCGCAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCg < 1:89359/69‑1 (MQ=255)
acGCTGGACAAGCGCAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCg < 1:1681071/69‑1 (MQ=255)
acGCTGGACAAGCGCAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCg < 1:709851/69‑1 (MQ=255)
cGCTGGACAAGCGCAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCg < 1:1756036/68‑1 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:2450457/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:3236452/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:3263562/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:3351368/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:575522/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:1697370/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:2340097/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:267662/1‑69 (MQ=255)
cTGGACAAGCGCAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGAc > 1:1905095/1‑69 (MQ=255)
cgcAATAGGGAACTGTCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCaa > 1:1126375/1‑68 (MQ=255)
cgcAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCaa > 1:2746433/1‑68 (MQ=255)
cgcAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCaa > 1:2484857/1‑68 (MQ=255)
cgcAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCaa > 1:962531/1‑68 (MQ=255)
cgcAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCaa > 1:1087193/1‑68 (MQ=255)
cgcAATAGGGAACTGCCTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCAt > 1:3236659/1‑65 (MQ=255)
cgcAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCATCaa > 1:41625/1‑68 (MQ=255)
cgcAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCATCaa > 1:1732736/1‑68 (MQ=255)
cgcAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCATCaa > 1:2509478/1‑68 (MQ=255)
cgcAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCATCaa > 1:1778857/1‑68 (MQ=255)
cgcAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCATCaa > 1:2387653/1‑68 (MQ=255)
cgcAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCATCaa > 1:1878934/1‑68 (MQ=255)
cgcAATAGGGAACTGACTAAGATCAGCAGAACCACTCACCCCCGCCAAATTCAGGCGGACGCCATCaa > 1:1908508/1‑68 (MQ=255)
aaTAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTaa < 1:2267532/69‑1 (MQ=255)
gtgAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:1396892/3‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGc > 1:2449884/1‑55 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCaaat > 1:1933855/1‑61 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAAtt > 1:1941097/1‑63 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAAtt > 1:2439129/1‑63 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAAtt > 1:2690333/1‑63 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAAtt > 1:1874111/1‑63 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAAtt > 1:3034357/1‑63 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAAtt > 1:765186/1‑63 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAAtt > 1:1196357/1‑63 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAacac > 1:3087180/1‑68 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAaca > 1:1147402/1‑67 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:2625955/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:3072583/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:312474/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:660882/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:2281550/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:2176952/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:1475264/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:1655858/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:1692203/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:145630/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:1427925/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:1899359/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:227042/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:2308404/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:1117434/1‑69 (MQ=255)
gggAACTGGCTAAGGTCGGCAGAACCACTCACCACCGCCAGATTCAGGCGTACGCCATCAATTAACAcc > 1:727746/1‑69 (MQ=255)
aCTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACACCAaca < 1:1625952/69‑1 (MQ=255)
gTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGc > 1:2198532/1‑69 (MQ=255)
gTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGc > 1:1473256/1‑69 (MQ=255)
cAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTg < 1:2657703/69‑1 (MQ=255)
aCCCCCGCCAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAAt > 1:62894/1‑68 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:1344724/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:1115028/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:1418288/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:739045/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:1298129/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:2427410/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:1738159/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:2981969/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:1775335/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:2577875/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:246808/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:228064/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:2424262/69‑1 (MQ=255)
ccGCCAAATTCAGGCGGACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATaaaaa < 1:2428266/69‑1 (MQ=255)
ccAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATAAAAATAg < 1:1520356/69‑1 (MQ=255)
ccAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATAAAAATAg < 1:1710064/69‑1 (MQ=255)
ccAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATAAAAATAg < 1:218153/69‑1 (MQ=255)
ccAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATAAAAATAg < 1:934990/69‑1 (MQ=255)
|
ACGCTGGACAAGCGCAATAGGGAACTGGCTAAGGTCGGCAGAACCACTCACCCCCGCCAGATTCAGGCGTACGCCATCAATTAACACCAACACATGACTGGCATTTGTACCGCGAATAAAAATAG > minE/2278371‑2278495
|
| 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
