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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,213,335 |
A→G |
34.0% |
N301S (AAT→AGT) |
yehQ → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,213,335 | 0 | A | G | 34.0%
| 48.8
/ 42.8
| 47 | N301S (AAT→AGT) | yehQ | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (15/16); new base G (8/8); total (23/24) |
| 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 |
CGCCAGCCACTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTGGCGCACG > W3110S.gb/2213273‑2213399
|
cgcCAGCCACTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGcac < 1:2828044/71‑1 (MQ=255)
ccagccaCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACaa < 1:440696/71‑1 (MQ=255)
ccagccaCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACaa < 1:772551/71‑1 (MQ=255)
agccaCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAaga < 1:1953767/71‑1 (MQ=255)
agccaCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAaga < 1:1986222/71‑1 (MQ=255)
gccaCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAagag < 1:1524869/71‑1 (MQ=255)
gccaCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAagag < 1:458016/71‑1 (MQ=255)
caCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTaaa > 1:1596735/1‑56 (MQ=255)
caCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTaaa > 1:287977/1‑56 (MQ=255)
caCTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTaaa > 1:1509942/1‑56 (MQ=255)
tataATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAaga < 1:3158903/65‑1 (MQ=255)
tataATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAagag < 1:3290667/66‑1 (MQ=255)
ataATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAAGAGATGGcc > 1:45396/1‑71 (MQ=255)
ataATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGcc > 1:678037/1‑71 (MQ=255)
ataATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGcc > 1:3276823/1‑71 (MQ=255)
taATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAAGAGATGGccc > 1:655537/1‑71 (MQ=255)
ccGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTGGATTAAGTTGCGCACAAGAGATGGccc > 1:363668/1‑66 (MQ=255)
ccGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAAGAGATGGccc > 1:3655756/1‑66 (MQ=255)
cGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGcac < 1:909424/53‑1 (MQ=255)
aaTGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAg < 1:2979014/70‑1 (MQ=255)
cTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTg > 1:3012111/1‑71 (MQ=255)
ttACATCAGCTTGCGGCATTAAACAGTCGATTaaa > 1:2523548/1‑35 (MQ=255)
aCATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAGTa > 1:2503018/1‑65 (MQ=255)
aCATCAGCTTGCGGCATTAAACAGTCGATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAGTa > 1:3279901/1‑65 (MQ=255)
aTCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAaga < 1:2559674/43‑1 (MQ=255)
aTCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAaga < 1:3473190/43‑1 (MQ=255)
aTCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAaga < 1:751383/43‑1 (MQ=255)
tCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATgg < 1:30831/47‑1 (MQ=255)
aGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGcc > 1:1724069/1‑47 (MQ=255)
aGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGcc > 1:834612/1‑47 (MQ=255)
gCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTtcctc < 1:196102/70‑1 (MQ=255)
cGGCATTAAACAGTCGATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTtcctcc < 1:1878839/70‑1 (MQ=255)
cGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTtcctc < 1:2189447/69‑1 (MQ=255)
aTTAAACAGTCCATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGt < 1:3692033/60‑1 (MQ=255)
ttAAACAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGt < 1:3207107/59‑1 (MQ=255)
aaaCAGTCGATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCg > 1:184413/1‑70 (MQ=255)
aaaCAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTgg > 1:2825135/1‑51 (MQ=255)
aaaCAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGt > 1:185906/1‑71 (MQ=255)
aaCAGTCGATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTg < 1:1936141/71‑1 (MQ=255)
aaCAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTAt < 1:46227/47‑1 (MQ=255)
cAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTg > 1:655925/1‑47 (MQ=255)
gTCGATTAAGTTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAg > 1:1107570/1‑51 (MQ=255)
gTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTtcctcc < 1:1175745/58‑1 (MQ=255)
gTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTtcctcc < 1:1981207/58‑1 (MQ=255)
gATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTa > 1:74079/1‑39 (MQ=255)
gATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTGGCGCACg > 1:405865/1‑71 (MQ=255)
gATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTGGCGCACg > 1:182943/1‑71 (MQ=255)
gATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTGGCGCACg > 1:3692173/1‑71 (MQ=255)
gATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTGGCGCACg > 1:3399752/1‑71 (MQ=255)
gATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTGGCGCACg > 1:2786940/1‑71 (MQ=255)
gATTAAATTGCGCACAAGAGATGGCACGGCGCGACAGTa > 1:365711/1‑39 (MQ=255)
aaaTTGCGCACAAGAGATGGCCCGGCGCGACAGTATTgg > 1:683210/1‑39 (MQ=255)
|
CGCCAGCCACTATAATGCCGGAGAATGCTTACATCAGCTTGCGGCATTAAACAGTCGATTAAATTGCGCACAAGAGATGGCCCGGCGCGACAGTATTGGTGAAGTTCCTCCTGTGCCGTGGCGCACG > W3110S.gb/2213273‑2213399
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
