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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,083,312 |
G→A |
52.6% |
G325E (GGG→GAG) |
rtcB → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,083,312 | 0 | G | A | 52.6%
| 1.6
/ 82.4
| 57 | G325E (GGG→GAG) | rtcB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (14/13); new base A (15/15); total (29/28) |
| 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 |
TCTGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTAATGAGCCG > W3110S.gb/4083245‑4083372
|
tCTGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCt < 1:3018480/71‑1 (MQ=255)
tGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTgg > 1:4356560/1‑71 (MQ=255)
tGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTgg > 1:1308884/1‑71 (MQ=255)
tGCTGGTCAATATGGTATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATg < 1:2265951/71‑1 (MQ=255)
tGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATg < 1:3506258/71‑1 (MQ=255)
tGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATg < 1:2575060/71‑1 (MQ=255)
tGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATg < 1:1306675/71‑1 (MQ=255)
tGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGc < 1:1345903/62‑1 (MQ=255)
tGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGc < 1:1239710/62‑1 (MQ=255)
gTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGa < 1:2544524/67‑1 (MQ=255)
cAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGt > 1:3929067/1‑70 (MQ=255)
atatGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGa < 1:2039340/58‑1 (MQ=255)
atGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGa < 1:2725881/61‑1 (MQ=255)
tGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGaaa > 1:4482132/1‑57 (MQ=255)
tGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGa < 1:3853478/55‑1 (MQ=255)
tGGAATGATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCt > 1:3723/1‑71 (MQ=255)
gAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTg < 1:1011882/70‑1 (MQ=255)
gAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTg < 1:407705/70‑1 (MQ=255)
gAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt > 1:4975784/1‑71 (MQ=255)
gAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt < 1:1349487/71‑1 (MQ=255)
gAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt < 1:548698/71‑1 (MQ=255)
gAATTATTCCCGGTTCGAAGGGAGCAAAAAGCTCTATCGTCCGTGAGCTGGGaaa > 1:4941830/1‑55 (MQ=255)
aaTTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGt < 1:2712211/70‑1 (MQ=255)
aaTTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt < 1:2828318/70‑1 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCg < 1:1443118/60‑1 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCt > 1:3822710/1‑64 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTg > 1:2896035/1‑71 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGt > 1:2937150/1‑70 (MQ=255)
ttCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTg < 1:3611824/70‑1 (MQ=255)
ggTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCa > 1:954968/1‑71 (MQ=255)
gTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCAc < 1:2583745/71‑1 (MQ=255)
gTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCAc < 1:4728855/71‑1 (MQ=255)
gTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCAc > 1:906244/1‑71 (MQ=255)
cGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAaga > 1:1332207/1‑46 (MQ=255)
cGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACgg > 1:106536/1‑70 (MQ=255)
cGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGt > 1:441656/1‑71 (MQ=255)
cGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGt > 1:2968846/1‑71 (MQ=255)
gggAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGt < 1:2756427/47‑1 (MQ=255)
gggAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt > 1:2838096/1‑52 (MQ=255)
gggAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt > 1:2671391/1‑52 (MQ=255)
gggAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt > 1:4045080/1‑52 (MQ=255)
gggAGCAAAAAGCTTTATCCTCCGTGAGCTGGGAAATGAaga > 1:2334634/1‑42 (MQ=38)
aaaaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCa > 1:1996422/1‑53 (MQ=255)
aaaaGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGt < 1:3146834/71‑1 (MQ=255)
aaaaGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGt < 1:1955617/71‑1 (MQ=255)
aaaGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTg > 1:1685073/1‑49 (MQ=255)
aaaGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTg > 1:1679105/1‑49 (MQ=255)
aaaGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTg > 1:1097858/1‑49 (MQ=255)
aaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAg < 1:1909460/51‑1 (MQ=255)
aaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACg > 1:2073858/1‑56 (MQ=255)
aaGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTaa > 1:1187928/1‑71 (MQ=255)
aGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCAc < 1:3677627/54‑1 (MQ=255)
aGCTTTATCGTCCGTGAGCTGGTAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGTTGCCGGGCGGGTAAt > 1:764150/1‑71 (MQ=255)
tATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTg < 1:2379325/42‑1 (MQ=255)
tCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAg > 1:535293/1‑43 (MQ=255)
tCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAg > 1:907776/1‑43 (MQ=255)
tCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTAATGAGCCg < 1:1019580/70‑1 (MQ=255)
|
TCTGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTAATGAGCCG > W3110S.gb/4083245‑4083372
|
| 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
