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 |
|
A5 F84 I0 R1
|
42 |
46.2 |
1977590 |
90.0% |
1779831 |
142.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
756,792 |
G→T |
100% |
E296* (GAA→TAA) |
sdhA → |
succinate:quinone oxidoreductase, FAD binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 756,792 | 0 | G | T | 99.7%
| 78.6
/ ‑7.3
| 33 | E296* (GAA→TAA) | sdhA | succinate:quinone oxidoreductase, FAD binding protein |
| Reads supporting (aligned to +/- strand): ref base G (2/0); new base T (17/14); total (19/14) |
| Fisher's exact test for biased strand distribution p-value = 4.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGGCGTACTGGTCACCGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTA > NC_000913/756653‑756912
|
gggCGTACTGGTCACCGAAGGTTGCCGTGGTGAAGGGGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGGGGTTGCGCGTTCCATCCTGCTCGaaa > 1:640240/1‑143 (MQ=255)
aCCGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTcg > 1:403405/1‑143 (MQ=255)
cGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCCGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTCAACGTcgcg > 2:180764/1‑143 (MQ=255)
cGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTGTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGAGATCCAGCATGATCGAACACCGTACAGCTcgcg > 2:594474/1‑143 (MQ=255)
gAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCgg > 2:772919/1‑143 (MQ=255)
gTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCtgt > 1:733224/1‑143 (MQ=255)
tGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACAGGGCGAACGTTTTATGGAGCGTTAGGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGa < 2:931834/143‑1 (MQ=255)
tGCAGTGGTCAAGGCTGTCATCTGCTGCACAAACACGGCGATCGTTTTATGGTCCGTTATGCGCCGACCGCTAACGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGa < 1:385029/143‑1 (MQ=255)
tgAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCACGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGt > 2:609417/1‑143 (MQ=255)
aGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGGTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGAGGGTCCGTgcg > 1:5321/1‑141 (MQ=255)
cGGGTATCGGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGc < 1:966588/143‑1 (MQ=255)
gTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAAACCGGGAAGGTAGCGGCTGTGATGGTCCGCGGGGGccc > 1:359169/1‑142 (MQ=255)
gtgAACAAACTGGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCgaa < 2:516208/142‑1 (MQ=255)
aaacaTGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCgaaactgaa > 1:249399/1‑143 (MQ=255)
gCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGAt > 1:831486/1‑143 (MQ=255)
gAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCCTGACCTGGTTGCGCCTACCATCATCAGCTAAATCCGCGAAGGTCGCGTCTGTGACGGTCCGTGGCGGCCACCCCCGAACCAGACACTccaaca > 2:946267/1‑138 (MQ=255)
atcggtttCTGGCGCGTGATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTGGCGCGTTCCATCATGATCTAAATCCGTGAAGCTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCAc < 2:688253/138‑1 (MQ=255)
gTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTg < 1:22093/143‑1 (MQ=255)
aTGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTaa > 1:809290/1‑143 (MQ=255)
ggAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAaag < 1:349563/143‑1 (MQ=255)
gCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAaagaag > 2:764157/1‑143 (MQ=255)
gcgcCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGGTCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGAGCGCCTGGGTGAGGAAGTTCTCGa > 2:775303/1‑143 (MQ=255)
ggcgcaCGCCAAGCACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCGTCGTGGTCTAACCCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAAt < 2:344966/138‑1 (MQ=255)
gCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTCAAGAAGTTCTCGGATCCCGTCt > 1:382829/1‑143 (MQ=255)
aaaGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCCCCTGcc > 2:298510/1‑143 (MQ=255)
gACCTGGCGGGGCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAGGGTCGCGGCTGTGATGGTCCGTGGGTGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCggg < 2:625764/143‑1 (MQ=255)
tGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATc > 1:690040/1‑143 (MQ=255)
cgggcgggGACGTGGTGGCGGGTCCCATCATGATCTAAAGCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTg < 1:476204/143‑1 (MQ=255)
cGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTTGGGGTGACATGCGAGACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTg < 1:772919/143‑1 (MQ=255)
gggCCGTGGCGGGGGTGCGCGTTGCATCGTGGTCTGGCTAGTCGAAGGGCGCGGCTGTGATGGGCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTgg < 2:434144/143‑1 (MQ=255)
ggCCGTGACGTGGTTGCGCTTTCCATCATGATCTAAAGCCGTGGAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGa < 2:249399/143‑1 (MQ=255)
tGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAAATGAAACTCGATCACCTGGGTAAGGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGt > 1:517325/1‑143 (MQ=255)
ggTTGCGCGGTCCATCGTGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACGTACTCTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTa < 2:877112/143‑1 (MQ=255)
|
GGGCGTACTGGTCACCGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTA > NC_000913/756653‑756912
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
