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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,430,365 |
T→C |
45.2% |
I111M (ATA→ATG) |
rfe ← |
UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,430,365 | 0 | T | C | 45.2%
| 11.9
/ 79.3
| 62 | I111M (ATA→ATG) | rfe | UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase |
| Reads supporting (aligned to +/- strand): ref base T (20/14); new base C (13/15); total (33/29) |
| Fisher's exact test for biased strand distribution p-value = 4.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.41e-01 |
CCGAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAGC > minE/2430297‑2430434
|
ccGAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATta > 1:530950/1‑70 (MQ=255)
cGAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATtat > 1:3246988/1‑70 (MQ=255)
cGAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATtat < 1:2649503/70‑1 (MQ=255)
cGAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATtat < 1:39854/70‑1 (MQ=255)
cGAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATtat < 1:449073/70‑1 (MQ=255)
gaacACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATtat < 1:2056754/66‑1 (MQ=255)
gCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACa < 1:2931554/71‑1 (MQ=255)
aCCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAAt < 1:616394/71‑1 (MQ=255)
cATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATtat < 1:2497100/63‑1 (MQ=255)
tctcCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGcc > 1:411343/1‑70 (MQ=255)
ccAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATtata < 1:2997940/58‑1 (MQ=255)
ccAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCaa < 1:2055069/68‑1 (MQ=255)
aGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCg > 1:3022482/1‑71 (MQ=255)
aGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCg > 1:3419524/1‑71 (MQ=255)
aGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCg < 1:3702487/71‑1 (MQ=255)
aGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCg < 1:2772344/71‑1 (MQ=255)
ggAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCg < 1:1805364/70‑1 (MQ=255)
ccAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGcc > 1:3229912/1‑59 (MQ=255)
aaaGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTa < 1:1004658/71‑1 (MQ=255)
aaaGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTa < 1:1051562/71‑1 (MQ=255)
aaaGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTa > 1:3702551/1‑71 (MQ=255)
aaGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATg < 1:1520545/54‑1 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTAtg > 1:1628340/1‑71 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTAtg > 1:1111434/1‑71 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATg < 1:1076174/53‑1 (MQ=255)
gATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACa < 1:1159066/49‑1 (MQ=255)
gATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGcc > 1:2222422/1‑54 (MQ=255)
gATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTAtgg > 1:328943/1‑71 (MQ=255)
ataACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTa < 1:1177442/65‑1 (MQ=255)
taACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAtggtgg < 1:2065153/70‑1 (MQ=255)
cccAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACg > 1:740747/1‑71 (MQ=255)
ccAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACa < 1:2460143/50‑1 (MQ=255)
ccAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACa < 1:441269/50‑1 (MQ=255)
ggCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtt > 1:3351822/1‑71 (MQ=255)
gCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAttt < 1:666280/71‑1 (MQ=255)
gCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAtggt < 1:2526485/60‑1 (MQ=255)
cTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTa > 1:2263930/1‑55 (MQ=255)
cTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtttt > 1:3887394/1‑71 (MQ=255)
tACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGc > 1:847405/1‑46 (MQ=255)
tACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtttt > 1:3194303/1‑70 (MQ=255)
tACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtttt > 1:2301753/1‑70 (MQ=255)
tACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtttt > 1:1456874/1‑70 (MQ=255)
cTGAGATAAAGCTTGCCGAACACCATCATAACAATGcc < 1:698754/38‑1 (MQ=255)
tGAGATAAAGCTTGCCGAACACCATCATAACAATGcc < 1:247316/37‑1 (MQ=255)
gagaTAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGt > 1:1031309/1‑49 (MQ=255)
gagaTAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGt > 1:3202306/1‑49 (MQ=255)
gagaTAAAGCTTGCCGAACACCATCATAACAATGCCAACAg > 1:1998880/1‑41 (MQ=255)
agaTAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGTATTTTTACGCt < 1:3865893/71‑1 (MQ=255)
gaTAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCg < 1:2891928/41‑1 (MQ=255)
gaTAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCg < 1:2075274/41‑1 (MQ=255)
aaaGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGata > 1:809726/1‑71 (MQ=255)
aaaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAtggtgg > 1:877963/1‑51 (MQ=255)
aaaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAtgg > 1:2581099/1‑48 (MQ=255)
aaaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtt < 1:1721548/59‑1 (MQ=255)
aGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGatat > 1:3182296/1‑70 (MQ=255)
ttGCCGAACACCATTATAACAATGCCAACAGCGGCCt > 1:2094376/1‑37 (MQ=255)
ttGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCaa < 1:872748/70‑1 (MQ=255)
gCCGAACACCATTATAACAATGCCAACAGCGGCCTGTAtggtg > 1:1782349/1‑43 (MQ=255)
ccGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACg < 1:2469688/71‑1 (MQ=255)
cGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGata > 1:3401858/1‑62 (MQ=255)
aaCACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAttt > 1:3351420/1‑49 (MQ=255)
aaCACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAttt > 1:2387357/1‑49 (MQ=255)
acacCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCa < 1:202076/71‑1 (MQ=255)
acacCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCa < 1:1690225/71‑1 (MQ=255)
acacCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCa < 1:700376/71‑1 (MQ=255)
cacCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCAt > 1:2826386/1‑71 (MQ=255)
cATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAt > 1:1298250/1‑42 (MQ=255)
cATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCa < 1:1036553/71‑1 (MQ=255)
aTTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTc > 1:3839558/1‑65 (MQ=255)
aTTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTc > 1:981462/1‑65 (MQ=255)
ttATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAgc > 1:608175/1‑71 (MQ=255)
ttATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAgc > 1:559657/1‑71 (MQ=255)
ttATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAgc > 1:975040/1‑71 (MQ=255)
tataACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTc > 1:665075/1‑63 (MQ=255)
|
CCGAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAGC > minE/2430297‑2430434
|
| 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
