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 |
|
A1 F1 I2 R1
|
730 |
35.1 |
2107516 |
91.4% |
1926269 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,569,344 |
(T)6→5 |
intergenic (‑16/+2) |
glgC ← / ← glgX |
glucose‑1‑phosphate adenylyltransferase/limit dextrin alpha‑1,6‑glucohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,569,339 | 0 | T | . | 97.1%
| 134.6
/ ‑1.5
| 36 | intergenic (‑11/+7) | glgC/glgX | glucose‑1‑phosphate adenylyltransferase/limit dextrin alpha‑1,6‑glucohydrolase |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base . (20/14); total (21/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
CAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCCTCT > NC_000913/3569260‑3569415
|
cAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCtt > 2:687941/1‑81 (MQ=255)
aGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCttt < 2:687884/81‑1 (MQ=255)
aGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCtt < 2:687883/80‑1 (MQ=255)
aGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCtt < 1:687882/80‑1 (MQ=255)
gggCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCtttt < 1:687885/81‑1 (MQ=255)
gggCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCtttt > 2:687939/1‑81 (MQ=255)
ggCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCttttt < 1:687886/81‑1 (MQ=255)
gCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCttttta < 2:687887/81‑2 (MQ=255)
cAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTatcat > 2:687961/1‑81 (MQ=255)
gATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCAtct < 1:687888/81‑1 (MQ=255)
tttCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATctct < 1:687889/81‑1 (MQ=255)
aTGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGaa > 2:687959/1‑80 (MQ=255)
aTGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAac < 1:687891/81‑1 (MQ=255)
aTGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAac < 2:687890/81‑1 (MQ=255)
gccgCTGGCGCGCCAACCTTAAGTGATCGTTCTTCTCTAAACTAACCATGACTCACTCC‑TTTTAAACATCTCTGGAacaca < 2:687893/78‑1 (MQ=255)
cAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAacacac < 2:687892/81‑1 (MQ=255)
cgcgcCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATcc < 1:687894/81‑1 (MQ=255)
gcCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCgtg > 1:687943/1‑81 (MQ=255)
ccAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCgtgt > 1:687934/1‑81 (MQ=255)
tAAGTAATCGTTCTTCTCAAAACTAACAAT‑ACCAAC‑CCCCTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTc < 1:687895/80‑1 (MQ=255)
aaGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTcc > 2:687942/1‑81 (MQ=255)
aGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTccc > 2:688013/1‑81 (MQ=255)
aGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTccc > 1:687938/1‑81 (MQ=255)
gTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCt < 1:687896/81‑1 (MQ=255)
gTGATCGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCt > 1:687953/1‑81 (MQ=255)
gATCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTg > 1:687962/1‑81 (MQ=255)
cGTTCTTCTCTAAACTAACCATGACTAACTCC‑TTTCTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGc > 1:687940/1‑78 (MQ=255)
ttcttcTCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGAc < 1:687897/81‑1 (MQ=255)
ttctCTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGc > 1:687915/1‑81 (MQ=255)
tctcTAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGcc > 1:687947/1‑81 (MQ=255)
tAAACTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTaa > 1:687944/1‑81 (MQ=255)
aaaCTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGAGCAGGTCCCTGCCAGACAGCCGTAAt > 2:687950/1‑81 (MQ=255)
aaCTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACTCACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTa < 2:687898/78‑1 (MQ=255)
cTAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCAc > 1:687968/1‑81 (MQ=255)
tAACCATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACt > 1:687952/1‑81 (MQ=255)
ccATGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTggg < 2:687899/81‑1 (MQ=255)
aTGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGtt < 2:687900/81‑1 (MQ=255)
aTGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGtt < 2:687901/81‑1 (MQ=255)
aTGACTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGt > 2:687956/1‑80 (MQ=255)
cTAACTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATcc > 2:687966/1‑81 (MQ=255)
aaCTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCctc > 2:688002/1‑81 (MQ=255)
aCTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCctct > 1:687977/1‑81 (MQ=255)
aCTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCctct > 2:687969/1‑81 (MQ=255)
aCTCC‑TTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCct < 1:687902/79‑1 (MQ=255)
|
CAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAACTCCTTTTTTATCATCTCTGGAACACACACAATCCGTGTGCAGGTCCCTGCCAGACAGCCGTAATCACTGGGTTATCCTCT > NC_000913/3569260‑3569415
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
