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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,092,365 |
A→G |
K13E (AAA→GAA) |
hisG → |
ATP phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,092,365 | 0 | A | G | 97.8%
| 157.4
/ ‑4.0
| 46 | K13E (AAA→GAA) | hisG | ATP phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (31/14); total (32/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 |
ACAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGAAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCTT > W3110S.gb/2092324‑2092430
|
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGaaa > 1:3007409/1‑44 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGaaa > 1:1942325/1‑44 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGaaa > 1:172754/1‑44 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTa > 1:2709503/1‑56 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGtgatg > 1:1342463/1‑63 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCAcgc > 1:1302555/1‑71 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCAc > 1:1020439/1‑69 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGAAATCCGGCCGTTTAAGTGATGACTCAcgc > 1:1325620/1‑71 (MQ=255)
aCAAAATGACAGACAACACTCGTTTACGCATAGCTATCCAGGAATCCGGCCg > 1:2703716/1‑52 (MQ=255)
aTGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAg > 1:2364942/1‑53 (MQ=255)
aTGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGAc > 1:2166439/1‑60 (MQ=255)
aTGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAAtt > 1:581552/1‑71 (MQ=255)
aTGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAAtt > 1:2447026/1‑71 (MQ=255)
aTGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAAt > 1:2075026/1‑70 (MQ=255)
aTGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAAt > 1:3230494/1‑70 (MQ=255)
aTGACAGACAACACTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAAt > 1:1114469/1‑70 (MQ=255)
caacaCTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGgcgc > 1:1116361/1‑71 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCa > 1:3969622/1‑51 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCtg > 1:409134/1‑71 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCtg > 1:3929789/1‑71 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCtg > 1:4136607/1‑71 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCtg > 1:2415091/1‑71 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCtg > 1:3266035/1‑71 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCtg > 1:2696424/1‑71 (MQ=255)
acTCGTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCt > 1:1502579/1‑70 (MQ=255)
gTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTgg < 1:1257780/70‑1 (MQ=255)
gTTTACGCATAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGAGCTGTgg < 1:3226217/70‑1 (MQ=255)
aTAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAAt > 1:2225179/1‑71 (MQ=255)
aTAGCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAAt > 1:2162534/1‑71 (MQ=255)
gCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGc > 1:3861479/1‑60 (MQ=255)
gCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGc > 1:295546/1‑60 (MQ=255)
gCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTaa > 1:845574/1‑71 (MQ=255)
gCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTa < 1:2435010/70‑1 (MQ=255)
gCTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTa > 1:2196316/1‑70 (MQ=255)
cTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAAt < 1:2460956/71‑1 (MQ=255)
cTATGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAAt < 1:3748265/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:313036/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:590706/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:5297/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:489192/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:1137290/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:4041749/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:3992003/71‑1 (MQ=255)
tGCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:3708381/71‑1 (MQ=255)
gCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt > 1:2130566/1‑70 (MQ=255)
gCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt > 1:1103718/1‑70 (MQ=255)
gCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt > 1:3165635/1‑70 (MQ=255)
gCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCtt < 1:1008701/70‑1 (MQ=255)
gCAGGAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCt > 1:2317042/1‑69 (MQ=255)
|
ACAAAATGACAGACAACACTCGTTTACGCATAGCTATGCAGAAATCCGGCCGTTTAAGTGATGACTCACGCGAATTGCTGGCGCGCTGTGGCATTAAAATTAATCTT > W3110S.gb/2092324‑2092430
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
