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 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,008,134 |
C→T |
15.1% |
intergenic (‑112/‑132) |
ycbX ← / → ycbY |
predicted 2Fe‑2S cluster‑containing protein/predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,008,134 | 0 | C | T | 15.1%
| 139.9
/ 15.3
| 53 | intergenic (‑112/‑132) | ycbX/ycbY | predicted 2Fe‑2S cluster‑containing protein/predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (20/25); new base T (4/4); total (24/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.98e-01 |
ACGCGCTTATTAGCTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGTTTCTCCGCGCT > W3110S.gb/1008067‑1008198
|
acGCGCTTATTAGCTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGt < 1:2536556/71‑1 (MQ=255)
gcgcTTATTAGCTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGttt < 1:2853959/71‑1 (MQ=255)
taGCTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTgg > 1:4074484/1‑71 (MQ=255)
taGCTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTgg > 1:4079071/1‑71 (MQ=255)
aGCTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTggg > 1:2412703/1‑71 (MQ=255)
cTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAg < 1:3137448/57‑1 (MQ=255)
tataATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTa > 1:1663930/1‑71 (MQ=255)
taATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTGTTTGTCAGTTTGGCCCTGGGTTATg < 1:910476/71‑1 (MQ=255)
taATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGt < 1:206495/67‑1 (MQ=255)
taATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATg < 1:1845269/71‑1 (MQ=255)
taATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATg > 1:589363/1‑71 (MQ=255)
aTGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCa > 1:1786977/1‑51 (MQ=255)
caacaaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGaaa < 1:169518/71‑1 (MQ=255)
caacaaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGaaa < 1:4238916/71‑1 (MQ=255)
aacaaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTTAGTTTGGCCCTGGGTTATGCTCGaaa < 1:2016461/70‑1 (MQ=255)
aacaaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGa < 1:4243730/68‑1 (MQ=255)
caaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTTAGTTTGGCCCTGGGTTATGCTCGAAAt > 1:881297/1‑69 (MQ=255)
caaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATcc < 1:3373586/71‑1 (MQ=255)
aaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTTAg < 1:3228364/43‑1 (MQ=255)
aaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCa > 1:3901951/1‑42 (MQ=255)
aaTTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTAt > 1:2377698/1‑59 (MQ=255)
ttttCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTc < 1:3768390/70‑1 (MQ=255)
ttCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGtt > 1:998332/1‑41 (MQ=255)
ttCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATTCTCGAAATCCTCACg > 1:3142308/1‑71 (MQ=255)
ttCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATTCTCGAAATCCTCACg > 1:3147411/1‑71 (MQ=255)
ttCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCAc < 1:211070/70‑1 (MQ=255)
ttCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACg > 1:1998247/1‑71 (MQ=255)
tCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACg < 1:614608/70‑1 (MQ=255)
cTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTTAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGt < 1:3365347/70‑1 (MQ=255)
cTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCT‑‑GTTATGCTCGAAATCCTCACGTAc < 1:1869678/70‑1 (MQ=37)
aGCGCCTGTCCCATTAGGCTATTTTATTTGTTAGTTTGGCCCTGGGTTa > 1:1348556/1‑49 (MQ=255)
aGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTa < 1:1141926/68‑1 (MQ=255)
ccTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTgtgt < 1:606611/71‑1 (MQ=255)
cTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCg < 1:563097/50‑1 (MQ=255)
cTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTa < 1:1546414/71‑1 (MQ=255)
tGTCCCATTAGGCTATTTTATTTGTTAGTTTGGCCCTg > 1:1403306/1‑38 (MQ=255)
tCCCATTAGGCTATTTTATTTGTTAGTTTGGCCCTGGGTTATGCTCGAAATCCTc > 1:3787545/1‑55 (MQ=255)
aTTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTtgtg < 1:4047925/62‑1 (MQ=255)
tAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGt > 1:4000682/1‑71 (MQ=255)
aGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGtt > 1:3779632/1‑71 (MQ=255)
ggCTATTTTATTTGTCAGTTTGGCCCTGGGTTATg > 1:3749783/1‑35 (MQ=255)
gCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTGCg < 1:4003674/66‑1 (MQ=255)
gCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGTTtc < 1:3389704/71‑1 (MQ=255)
cTATTTTATTTGTTAGTTTGGCCCTGGGTTATGCTCGaa < 1:3680124/39‑1 (MQ=255)
tattttatttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGt > 1:2650613/1‑48 (MQ=255)
tattttatttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTa > 1:253207/1‑49 (MQ=255)
tattttatttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGTTtctc > 1:1441192/1‑71 (MQ=255)
tttatttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGtt < 1:501711/64‑1 (MQ=255)
ttatttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGt < 1:986036/62‑1 (MQ=255)
ttatttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGTTTCTCcgcg > 1:1589989/1‑71 (MQ=255)
tatttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGttt > 1:4033242/1‑63 (MQ=255)
tttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTc < 1:2491438/37‑1 (MQ=255)
tttGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGTTTCTCCGCGCt < 1:2545939/70‑1 (MQ=255)
cAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTa > 1:4035113/1‑45 (MQ=255)
|
ACGCGCTTATTAGCTATAATGCGCAACAATTTTCTTAGCGCCTGTCCCATTAGGCTATTTTATTTGTCAGTTTGGCCCTGGGTTATGCTCGAAATCCTCACGTACTTGTGTACGCTCCGGTTTCTCCGCGCT > W3110S.gb/1008067‑1008198
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
