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 |
1,006,546 |
G→A |
23.2% |
A143A (GCG→GCA) |
ydgH → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,006,546 | 0 | G | A | 23.2%
| 103.5
/ 22.3
| 77 | A143A (GCG→GCA) | ydgH | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (27/32); new base A (13/5); total (40/37) |
| Fisher's exact test for biased strand distribution p-value = 6.20e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.99e-01 |
CACGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCAAC > minE/1006483‑1006612
|
cacGGTCACCGTCCATGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaa < 1:1906550/68‑1 (MQ=255)
cacGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaa < 1:1677444/68‑1 (MQ=255)
cacGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaa < 1:1537558/68‑1 (MQ=255)
cacGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaa < 1:127747/68‑1 (MQ=255)
cacGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaa < 1:3285404/68‑1 (MQ=255)
cacGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaa < 1:216618/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:2195944/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:600724/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:555331/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:3381754/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:2828369/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:2265946/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:3271870/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:3085573/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:3041672/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:2643622/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:2771380/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:2806756/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:1663216/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:1358182/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaaa < 1:1755807/68‑1 (MQ=255)
acGGTCACCGTCCAGGGCTTCTAACGTAGCCAGCCAGAAGCCAATGATGCCATCACCAAAGCGGCaaa < 1:3150841/68‑1 (MQ=255)
cgccGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGaa < 1:138254/67‑1 (MQ=255)
cACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGaa < 1:119237/69‑1 (MQ=255)
cACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGaa < 1:216147/69‑1 (MQ=255)
cACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGaa < 1:870710/69‑1 (MQ=255)
ccAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGc < 1:1231775/69‑1 (MQ=255)
cAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGcc < 1:1435646/69‑1 (MQ=255)
cAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGc < 1:1475187/68‑1 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCaaaa > 1:2355869/1‑49 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTActct > 1:3031753/1‑67 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:1104879/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:3024311/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:2726339/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:2543771/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:2245072/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:63316/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:214933/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:3382216/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:546470/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:1848231/1‑68 (MQ=255)
cTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCAGCAAAAGCGAAAGGTGCCTACTCtt > 1:1814440/1‑68 (MQ=255)
tCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTa > 1:2660450/1‑69 (MQ=255)
tCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTa > 1:1154075/1‑69 (MQ=255)
tAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCaa < 1:1494994/41‑1 (MQ=255)
cAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:909654/1‑69 (MQ=255)
gCCATCACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCa > 1:616259/1‑67 (MQ=255)
cACCAAAGGGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:955674/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCTTTCGTCAAATCGa > 1:608649/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:2763832/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:754755/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:1200018/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:2065181/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:226609/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:3095214/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:2560186/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:2580400/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGa > 1:2865785/1‑57 (MQ=255)
cACCAAAGCGGCAAAAGCGAAAGGTGCATACTCTTTCTACATCGTTCGTCAAATCGa > 1:716682/1‑57 (MQ=255)
aCCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGggc > 1:743224/1‑69 (MQ=255)
aCCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGggc > 1:195396/1‑69 (MQ=255)
aCCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGggc > 1:1855517/1‑69 (MQ=255)
aCCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGggc > 1:1764565/1‑69 (MQ=255)
cAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACAt > 1:1435345/1‑39 (MQ=255)
cAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAAc > 1:1286130/1‑61 (MQ=255)
cAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAAc > 1:3366599/1‑61 (MQ=255)
cAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAAc > 1:2562985/1‑61 (MQ=255)
cAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAAc > 1:3338812/1‑61 (MQ=255)
cAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGggcg > 1:768315/1‑68 (MQ=255)
cAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGggcg > 1:243640/1‑68 (MQ=255)
aaGCAGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCa < 1:10547/69‑1 (MQ=255)
aaGCAGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCa < 1:1836254/69‑1 (MQ=255)
aaGCAGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCa < 1:1936032/69‑1 (MQ=255)
aaGCAGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCa < 1:3359805/69‑1 (MQ=255)
aaGCAGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCa < 1:3120839/69‑1 (MQ=255)
gCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCAAc < 1:1633477/69‑1 (MQ=255)
gCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCAAc < 1:809225/69‑1 (MQ=255)
|
CACGGTCACCGTCCAGGGCTTCTATCGTAGCCAGCCAGAAGTCAATGATGCCATCACCAAAGCGGCAAAAGCGAAAGGTGCCTACTCTTTCTACATCGTTCGTCAAATCGATGCCAACCAGGGCGGCAAC > minE/1006483‑1006612
|
| 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
