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 |
1,489,179 |
T→C |
26.1% |
F77F (TTT→TTC) |
ydcF → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,489,179 | 0 | T | C | 26.1%
| 108.6
/ 44.3
| 65 | F77F (TTT→TTC) | ydcF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (30/18); new base C (6/11); total (36/29) |
| Fisher's exact test for biased strand distribution p-value = 8.72e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAC > W3110S.gb/1489111‑1489247
|
tGTAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACtttctt < 1:3431195/71‑1 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:2689795/70‑1 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:1143130/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:2949491/70‑1 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:652602/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:1658524/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:1687337/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:3645999/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTg < 1:3478154/70‑1 (MQ=255)
aaGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:232408/69‑1 (MQ=255)
aGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta < 1:2427592/70‑1 (MQ=255)
aGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta > 1:2131250/1‑70 (MQ=255)
aGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta < 1:3583887/70‑1 (MQ=255)
aTTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGta > 1:1865964/1‑68 (MQ=255)
tGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta > 1:805062/1‑66 (MQ=255)
tGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta > 1:1242079/1‑66 (MQ=255)
gcgATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATc > 1:2138132/1‑71 (MQ=255)
gcgATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATc > 1:1253376/1‑71 (MQ=255)
gcgATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATc > 1:2950373/1‑71 (MQ=255)
gcgATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGta > 1:596492/1‑61 (MQ=255)
cgATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCg < 1:2038703/71‑1 (MQ=255)
cgATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCCCCATCg < 1:685586/71‑1 (MQ=255)
aTCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTg < 1:3342378/56‑1 (MQ=255)
cAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta > 1:3472826/1‑56 (MQ=255)
cAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta > 1:973918/1‑56 (MQ=255)
aGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAgcgc < 1:194338/61‑1 (MQ=255)
cAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCa > 1:3101191/1‑71 (MQ=255)
ttCCTTTACTGATTAGTGGTGATATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCg > 1:2090606/1‑71 (MQ=255)
tAGTGGTGGTATCGGTCACTCGACAACTTTCTTGta > 1:2890957/1‑36 (MQ=255)
tAGTGGTGGTATCGGTCACTCGACAACTTTCTTGta > 1:2393120/1‑36 (MQ=255)
aGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTa > 1:774910/1‑70 (MQ=255)
gtggtATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGc < 1:347287/71‑1 (MQ=255)
gtggtATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGc < 1:3542045/71‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCg < 1:250482/64‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCg < 1:3953262/64‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCg < 1:1687575/64‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCg < 1:1595403/64‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACt > 1:1866500/1‑71 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATc > 1:3757362/1‑43 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATc > 1:3222120/1‑43 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATc > 1:3253978/1‑43 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg > 1:3877931/1‑71 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg < 1:3556830/71‑1 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg > 1:2485231/1‑71 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg > 1:3927350/1‑71 (MQ=255)
cACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTac < 1:3256053/48‑1 (MQ=255)
aCTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACt < 1:3140485/53‑1 (MQ=255)
aCTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcag < 1:3211297/70‑1 (MQ=255)
aCTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTAt > 1:3314805/1‑55 (MQ=255)
cTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACt < 1:3695178/44‑1 (MQ=255)
cTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACt < 1:2779186/44‑1 (MQ=255)
cTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACt < 1:3205438/44‑1 (MQ=255)
cTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTacaa > 1:1324102/1‑48 (MQ=255)
cTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTacaa > 1:4074206/1‑48 (MQ=255)
cTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTacaa > 1:3043874/1‑48 (MQ=255)
cTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTacaa > 1:312957/1‑48 (MQ=255)
cGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagag > 1:3063864/1‑69 (MQ=255)
gACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagag > 1:1116668/1‑68 (MQ=255)
gACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagag > 1:1706078/1‑68 (MQ=255)
gACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagag > 1:3068936/1‑68 (MQ=255)
aCAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACt < 1:3079251/60‑1 (MQ=255)
aCAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagagcag < 1:465958/70‑1 (MQ=255)
aCAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagagcag < 1:2233719/70‑1 (MQ=255)
aCAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagagcag < 1:1353022/70‑1 (MQ=255)
aCAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagagcag < 1:1114893/70‑1 (MQ=255)
aaCTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagagcaga < 1:1851413/69‑1 (MQ=255)
tttttGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAc > 1:3517541/1‑71 (MQ=255)
tttttGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAc > 1:425561/1‑71 (MQ=255)
ttttGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAc < 1:550100/70‑1 (MQ=255)
ttttGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAc < 1:3340535/70‑1 (MQ=255)
|
TGTAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAC > W3110S.gb/1489111‑1489247
|
| 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
