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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,436,722 |
T→C |
17.4% |
intergenic (‑751/+177) |
ynaE ← / ← uspF |
predicted DNA‑binding transcriptional regulator/stress‑induced protein, ATP‑binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,436,722 | 0 | T | C | 17.4%
| 108.5
/ 15.9
| 46 | intergenic (‑751/+177) | ynaE/uspF | predicted DNA‑binding transcriptional regulator/stress‑induced protein, ATP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base T (11/27); new base C (4/4); total (15/31) |
| Fisher's exact test for biased strand distribution p-value = 4.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGT > W3110S.gb/1436664‑1436767
|
tGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGAc < 1:1888213/70‑1 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAAtt > 1:189669/1‑69 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCg > 1:961991/1‑71 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCg > 1:812206/1‑71 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCg > 1:537296/1‑71 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCg > 1:479607/1‑71 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCg > 1:406647/1‑71 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCg > 1:1804262/1‑71 (MQ=255)
aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCg > 1:1752166/1‑71 (MQ=255)
cTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGt < 1:1133486/71‑1 (MQ=255)
cTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGt < 1:1159826/71‑1 (MQ=255)
cTTGTTCAGGTTGTATTGTCCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGt < 1:1053724/71‑1 (MQ=255)
gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTta < 1:996598/70‑1 (MQ=255)
gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTta < 1:846694/70‑1 (MQ=255)
gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTta < 1:339963/70‑1 (MQ=255)
gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTta < 1:1262861/70‑1 (MQ=255)
gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTta < 1:1294098/70‑1 (MQ=255)
gTTCAGGTGGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTta < 1:1832704/70‑1 (MQ=255)
ttCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTtat < 1:164650/70‑1 (MQ=255)
ttCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTtat < 1:985759/70‑1 (MQ=255)
ttCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTtat < 1:389962/70‑1 (MQ=255)
tGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGt > 1:834082/1‑60 (MQ=255)
tGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGt > 1:1722237/1‑60 (MQ=255)
tGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGt > 1:453384/1‑60 (MQ=255)
tGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATgg < 1:1332907/62‑1 (MQ=255)
tGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATgg < 1:1512058/62‑1 (MQ=255)
ttctttctTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag < 1:851651/71‑1 (MQ=255)
ttctttctTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag < 1:467531/71‑1 (MQ=255)
ttctttctTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag < 1:1435937/71‑1 (MQ=255)
ttctttctTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag < 1:1458081/71‑1 (MQ=255)
ttctttctTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag < 1:1545452/71‑1 (MQ=255)
tctttcttACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag < 1:1567116/70‑1 (MQ=255)
tcttACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTa < 1:425588/68‑1 (MQ=255)
cttACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGc < 1:697222/70‑1 (MQ=255)
cttACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGc < 1:128632/70‑1 (MQ=255)
tACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGt < 1:674965/70‑1 (MQ=255)
aCTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGt < 1:1736216/69‑1 (MQ=255)
cTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGt < 1:1546901/68‑1 (MQ=255)
tAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTa < 1:1549931/62‑1 (MQ=255)
aTTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCg > 1:237030/1‑39 (MQ=255)
aTTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTa > 1:1133605/1‑60 (MQ=255)
aTTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTa > 1:1621183/1‑60 (MQ=255)
aTTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCATTATATGGCATCAGAAGAGTa > 1:1101117/1‑60 (MQ=255)
tttCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGt < 1:781152/39‑1 (MQ=255)
tGATTTTGCGACATTTAAAAGCGACTCAATTCGTta < 1:1576756/36‑1 (MQ=255)
aTTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGt < 1:1770425/47‑1 (MQ=255)
|
TGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGT > W3110S.gb/1436664‑1436767
|
| 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
