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 I1 R1
|
748 |
32.0 |
1685426 |
92.6% |
1560704 |
103.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,897,050 |
+G |
coding (277/666 nt) |
yieH → |
phosphoenolpyruvate and 6‑phosphogluconate phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,897,046 | 1 | . | G | 92.1%
| 122.7
/ 3.5
| 38 | coding (273/666 nt) | yieH | phosphoenolpyruvate and 6‑phosphogluconate phosphatase |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base G (14/21); total (15/23) |
| 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 |
TTTCAAAGGTGTAAAACTGTACGAAATTATCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAA‑GGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTT > NC_000913/3896908‑3897156
|
tttCAAAGGTGTAAAACTGTACGAAATTATCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGaa < 2:108319/139‑1 (MQ=255)
gtAAAACTGTACGAAATTATCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAA‑GGG‑GCTGGAg > 2:67544/1‑139 (MQ=255)
gTACGAAATTATCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCt > 1:120142/1‑139 (MQ=255)
aCGAAATTATCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGt < 2:120142/139‑1 (MQ=255)
tATCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGAt < 2:830684/139‑1 (MQ=255)
tCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCa > 2:756651/1‑139 (MQ=255)
ttGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgtgtg < 2:608856/139‑1 (MQ=255)
tggAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTCCGATTCAGAACGGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgtgtg < 2:631850/137‑1 (MQ=255)
aCATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGt < 2:89027/139‑1 (MQ=255)
ggTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTcc > 1:759581/1‑104 (MQ=255)
ggTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTcc < 2:759581/104‑1 (MQ=255)
tACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACgg > 2:437242/1‑139 (MQ=255)
ttAGCGAAAACAGAAGCTGAACACGTTTACCGTGCATAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCTTCGAA‑GGGCGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTATCGGCCCa < 2:392285/139‑1 (MQ=255)
gCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCg < 2:550305/100‑1 (MQ=255)
gCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCg > 1:550305/1‑100 (MQ=255)
aaCAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACaa > 1:474690/1‑139 (MQ=255)
gAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATg < 1:756651/139‑1 (MQ=255)
cTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATgcagc < 1:230904/139‑1 (MQ=255)
aaCACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAA‑GGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTc < 1:67544/139‑1 (MQ=255)
tACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc < 2:429666/139‑1 (MQ=255)
tACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc < 2:689407/139‑1 (MQ=255)
tACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc > 1:689407/1‑139 (MQ=255)
tGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATGACAAAATGCAGCATTCTATGGGc > 2:723052/1‑134 (MQ=255)
tGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATGACAAAATGCAGCATTCTATGGGc < 1:723052/134‑1 (MQ=255)
cAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATTTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGa < 2:530602/139‑1 (MQ=255)
aaGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCa > 2:725236/1‑78 (MQ=255)
aaGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCa < 1:725236/78‑1 (MQ=255)
gCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAgcg > 1:538920/1‑49 (MQ=255)
gCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAgcg < 2:538920/49‑1 (MQ=255)
cTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACa < 1:117875/103‑1 (MQ=255)
cTCGGCTGTTCGATTCAGAACTGCAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACa > 2:117875/1‑103 (MQ=255)
gTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACtt < 2:474690/139‑1 (MQ=255)
gTTCGATTCAGAACTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACtt < 2:300453/139‑1 (MQ=255)
aaCTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCa > 1:396006/1‑54 (MQ=255)
aaCTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCa < 2:396006/54‑1 (MQ=255)
aaCTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgtgtg > 1:511367/1‑61 (MQ=255)
aaCTGGAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgtgtg < 2:511367/61‑1 (MQ=255)
gAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgt > 2:229901/1‑53 (MQ=255)
gAAGCCATCGAAGGGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgt < 1:229901/53‑1 (MQ=255)
|
TTTCAAAGGTGTAAAACTGTACGAAATTATCGATATTGTTTCCCTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAA‑GGG‑GCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTT > NC_000913/3896908‑3897156
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
