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 |
693,202 |
G→A |
27.8% |
E50E (GAG→GAA) |
hyaE → |
protein involved in processing of HyaA and HyaB proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 693,202 | 0 | G | A | 27.8%
| 72.9
/ 25.5
| 68 | E50E (GAG→GAA) | hyaE | protein involved in processing of HyaA and HyaB proteins |
| Reads supporting (aligned to +/- strand): ref base G (38/11); new base A (13/6); total (51/17) |
| Fisher's exact test for biased strand distribution p-value = 5.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GACGACTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGACTATA > minE/693134‑693257
|
gacgacTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCagag > 1:1509976/1‑69 (MQ=255)
gacTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGCGATCCGAAACGCACGCCAGAAGt < 1:912131/68‑1 (MQ=255)
gacTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGCGATCCGAAACGCACGCCAGAAGt < 1:770815/68‑1 (MQ=255)
gacTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGCGATCCGAAACGCACGCCAGAAGt < 1:1242810/68‑1 (MQ=255)
gacTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGCGATCCGAAACGCACGCCAGAAGt < 1:2552563/68‑1 (MQ=255)
gacTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGCGATCCGAAACGCACGCCAGAAGt < 1:2597378/68‑1 (MQ=255)
gacGGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGCGATCCGAAACGCACGCCAGAAGt < 1:2155542/68‑1 (MQ=255)
tGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGc > 1:745150/1‑69 (MQ=255)
tGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGc > 1:1383839/1‑69 (MQ=255)
ggCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAgg > 1:2139725/1‑67 (MQ=255)
ggCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGc > 1:1872029/1‑68 (MQ=255)
ggCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGc > 1:2836956/1‑68 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:2939475/68‑1 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:336062/68‑1 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:354177/68‑1 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:820389/68‑1 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:1152632/68‑1 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:1637519/68‑1 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:1702856/68‑1 (MQ=255)
ttACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGAt < 1:1506198/68‑1 (MQ=255)
aGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGt > 1:52776/1‑69 (MQ=255)
aGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGt > 1:1162462/1‑69 (MQ=255)
aGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGt > 1:327556/1‑69 (MQ=255)
aGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGt > 1:1816993/1‑69 (MQ=255)
aGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGt > 1:2118277/1‑69 (MQ=255)
aGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGt > 1:2768517/1‑69 (MQ=255)
tgtTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTAc > 1:2642634/1‑69 (MQ=255)
tgtTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTAc > 1:274360/1‑69 (MQ=255)
tgtTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTAc > 1:585327/1‑69 (MQ=255)
tgtTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTAc > 1:645129/1‑69 (MQ=255)
tgtTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTAc > 1:1832995/1‑69 (MQ=255)
attaAGCAGTGACGCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTgc > 1:1193961/1‑68 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTgc > 1:378489/1‑68 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTgc > 1:1461796/1‑68 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTgc > 1:3191938/1‑68 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTgc > 1:1826243/1‑68 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTgc > 1:1994538/1‑68 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTg > 1:321258/1‑67 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTg > 1:3224281/1‑67 (MQ=255)
attaAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCAGTAATGATTGGCGAATTACTgc > 1:2163175/1‑68 (MQ=255)
aaGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGcgcg > 1:468371/1‑68 (MQ=255)
aaGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGa > 1:2549116/1‑69 (MQ=255)
aaGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGa > 1:364589/1‑69 (MQ=255)
gTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTc > 1:511857/1‑69 (MQ=255)
gTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTc > 1:597995/1‑69 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTccc > 1:694577/1‑68 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:124616/1‑69 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:810849/1‑69 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:3113472/1‑69 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:1888816/1‑69 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:2073245/1‑69 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:2795330/1‑69 (MQ=255)
aCCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:1530409/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCg > 1:1117548/1‑67 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:2463730/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:986961/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:1680821/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:2246998/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:2318411/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:3190323/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:2690789/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:1505381/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:364041/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:3148236/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:1500049/1‑69 (MQ=255)
ccGAAACGCACGCCAGAAGTCAGCGATAACCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGAc > 1:3348315/1‑69 (MQ=255)
aaCGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGACtata < 1:3068033/69‑1 (MQ=255)
aaCGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGACtata < 1:1927516/69‑1 (MQ=255)
aaCGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGACtata < 1:1788751/69‑1 (MQ=255)
|
GACGACTGGCTTACGCAAGCGCCAGACGGCGTGGTGTTATTAAGCAGTGACCCGAAACGCACGCCAGAGGTCAGCGATAATCCGGTAATGATTGGCGAATTACTGCGCGAGTTTCCCGACTATA > minE/693134‑693257
|
| 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
