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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,085,271 |
A→G |
68.2% |
S127G (AGC→GGC) |
sbcB → |
exonuclease I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,085,271 | 0 | A | G | 68.2%
| 57.1
/ 35.8
| 44 | S127G (AGC→GGC) | sbcB | exonuclease I |
| Reads supporting (aligned to +/- strand): ref base A (9/5); new base G (4/26); total (13/31) |
| Fisher's exact test for biased strand distribution p-value = 1.14e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.12e-01 |
TCGACGACGAAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGTTAT > W3110S.gb/2085212‑2085327
|
tCGACGACGAAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGgcagc > 1:3025555/1‑69 (MQ=255)
tCGACGACGAAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGgcagc > 1:2710424/1‑69 (MQ=255)
tCGACGACGAAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGgcagc > 1:3453043/1‑69 (MQ=255)
acgacgaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTAGGCCTGGGGCTGGCAGCAt < 1:3478990/68‑1 (MQ=255)
acgacgaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCAt < 1:875016/68‑1 (MQ=255)
acgacgaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCAt < 1:2151362/68‑1 (MQ=255)
gacgaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGAt < 1:1298921/69‑1 (MQ=255)
acgaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGAt < 1:3068709/68‑1 (MQ=255)
gaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAAc > 1:122807/1‑69 (MQ=255)
gaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAAc > 1:2304407/1‑69 (MQ=255)
gaAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAAc > 1:641648/1‑69 (MQ=255)
cGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTgg < 1:984599/69‑1 (MQ=255)
cGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTgg < 1:2123880/69‑1 (MQ=255)
cGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTgg < 1:3660357/69‑1 (MQ=255)
aCATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGAtt < 1:123944/69‑1 (MQ=255)
aTTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCAt < 1:2349282/48‑1 (MQ=255)
aTTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCAt < 1:326333/48‑1 (MQ=255)
aTTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCAt < 1:375993/48‑1 (MQ=255)
aTTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCAt < 1:752420/48‑1 (MQ=255)
aTTTTTTATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCAt < 1:931929/48‑1 (MQ=255)
ttttttATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTAc > 1:1980989/1‑69 (MQ=255)
ttttttATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTAc > 1:3400641/1‑69 (MQ=255)
ttttttATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTAc > 1:1052541/1‑69 (MQ=255)
tttttATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGAtt < 1:990057/65‑1 (MQ=255)
tttttATCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGAtt < 1:1556789/65‑1 (MQ=255)
ttttATCGTAATTTCTACGATACTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGAtt < 1:3238067/64‑1 (MQ=255)
aTCGTAATTTCTACGATGCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGAt < 1:1399068/68‑1 (MQ=255)
tCGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGAt < 1:1228388/67‑1 (MQ=255)
cGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGt < 1:1016565/68‑1 (MQ=255)
cGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGt < 1:20811/68‑1 (MQ=255)
cGTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGt < 1:1990545/68‑1 (MQ=255)
gTAATTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGt < 1:623416/67‑1 (MQ=255)
aaTTTCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTAt < 1:2076353/68‑1 (MQ=255)
ttCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGt < 1:1788999/69‑1 (MQ=255)
ttCTACGATCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGt < 1:2407347/69‑1 (MQ=255)
ttCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGt > 1:97345/1‑69 (MQ=255)
aTCCTTACGCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGt < 1:1407904/68‑1 (MQ=255)
aTCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTTGGATTTACTGGATGTTATGCGTGCCTGt < 1:278597/68‑1 (MQ=255)
aTCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGt < 1:205050/68‑1 (MQ=255)
aTCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGt < 1:1077094/68‑1 (MQ=255)
ccTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGTTAt < 1:3560135/69‑1 (MQ=255)
ccTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGTTAt > 1:2404252/1‑69 (MQ=255)
gCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGt > 1:2676825/1‑60 (MQ=255)
gCCTGGGGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGt > 1:1669385/1‑60 (MQ=255)
|
TCGACGACGAAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGCGCTGGGATTTACTGGATGTTATGCGTGCCTGTTAT > W3110S.gb/2085212‑2085327
|
| 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
