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 |
1,032,910 |
T→C |
25.4% |
intergenic (+55/‑31) |
ydgT → / → ydgK |
predicted regulator/conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,032,910 | 0 | T | C | 25.4%
| 89.5
/ 31.5
| 55 | intergenic (+55/‑31) | ydgT/ydgK | predicted regulator/conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (21/20); new base C (8/6); total (29/26) |
| Fisher's exact test for biased strand distribution p-value = 7.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCACTATGTCCAATAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAGGCTGGTTG > minE/1032840‑1032979
|
gCACTATGTCCAATAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGAttt < 1:1550912/71‑1 (MQ=255)
tGTCCAATAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGt > 1:110703/1‑71 (MQ=255)
cAATAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGc > 1:2872880/1‑71 (MQ=255)
cAATAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCACCTAAAATTAGATTCGCCTGTTTGc < 1:2364261/71‑1 (MQ=255)
aTAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGt < 1:2150653/71‑1 (MQ=255)
tAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTc > 1:2935347/1‑71 (MQ=255)
tAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTCGCCTGTTTGCGTc > 1:3550564/1‑71 (MQ=255)
gaaagTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTg > 1:1966710/1‑55 (MQ=255)
gaaagTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTa > 1:824372/1‑71 (MQ=255)
agTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTc > 1:790326/1‑71 (MQ=255)
tAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTa > 1:103635/1‑66 (MQ=255)
aTCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGc < 1:2143137/46‑1 (MQ=255)
tCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAAc < 1:3833804/71‑1 (MQ=255)
tCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAAc < 1:2341543/71‑1 (MQ=255)
gTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTa < 1:3360359/71‑1 (MQ=255)
gTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTa > 1:1606911/1‑71 (MQ=255)
ttATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTg < 1:939692/44‑1 (MQ=255)
ttATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCg < 1:3193577/50‑1 (MQ=255)
ttATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTAt < 1:1783668/71‑1 (MQ=255)
ttATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTAt < 1:3586392/71‑1 (MQ=255)
tataAAAGCCTTATAATAACGCCCCTAAAATTAGATTCGCCTGTTTGCGTCGCTATTCt < 1:166642/59‑1 (MQ=255)
tataAAAGCCTTATAATAACGCCCCTAAAATTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTAt > 1:2152069/1‑70 (MQ=255)
taAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGac < 1:3219258/71‑1 (MQ=255)
taAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGac < 1:3214709/71‑1 (MQ=255)
aaGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGacca > 1:3534440/1‑70 (MQ=255)
cTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGt < 1:305158/41‑1 (MQ=255)
cTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACcaccac > 1:608424/1‑70 (MQ=255)
cTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccaca < 1:60493/71‑1 (MQ=255)
cTTATAATAACGCCCCTAAAATTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccaca < 1:1485232/71‑1 (MQ=255)
ataataACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTg > 1:2042706/1‑48 (MQ=255)
ataataACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccacaacg > 1:2238319/1‑71 (MQ=255)
taataaCGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccacaacg < 1:3837707/70‑1 (MQ=255)
taataaCGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccacaacg < 1:130980/70‑1 (MQ=255)
ataaCGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGCCCAccacaacgcca > 1:3596834/1‑71 (MQ=255)
aCGCCCCTAAAATTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccacaacgccacaa > 1:896810/1‑71 (MQ=255)
gCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccacaacgccacaacg < 1:2618901/71‑1 (MQ=255)
ccccTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTg < 1:371076/39‑1 (MQ=255)
cccTAAAATTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGAccacca > 1:3505795/1‑56 (MQ=255)
ccTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTAt > 1:3892087/1‑71 (MQ=255)
ccTAAAATTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACcaccac < 1:1446271/56‑1 (MQ=255)
cTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGa < 1:1168315/48‑1 (MQ=255)
cTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTAtt > 1:450640/1‑71 (MQ=255)
tAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGAccacca > 1:2669825/1‑53 (MQ=255)
aaaaTTAGATTCGCCTGTTTGCGTCGCTATTCTgg > 1:2160098/1‑35 (MQ=255)
aaaTTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGaccac > 1:1347997/1‑49 (MQ=255)
aaaTTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTg > 1:847463/1‑69 (MQ=255)
aaaTTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTa > 1:2822065/1‑42 (MQ=255)
aaaTTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTa > 1:912888/1‑66 (MQ=255)
aTTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGa < 1:1057829/43‑1 (MQ=255)
aTTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCAccacaacgccaca < 1:964264/59‑1 (MQ=255)
aTTAGATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAg > 1:2102215/1‑70 (MQ=255)
aGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGaccac > 1:2637612/1‑44 (MQ=255)
aGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTg > 1:1023832/1‑64 (MQ=255)
aGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTg > 1:276992/1‑64 (MQ=255)
gATTCGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAGGCTgg < 1:947874/71‑1 (MQ=255)
aTTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAGGCTGGt < 1:2937081/71‑1 (MQ=255)
ttGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGa > 1:214139/1‑62 (MQ=255)
ttGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGa > 1:209497/1‑62 (MQ=255)
ttGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAGGCTGGt > 1:3026404/1‑69 (MQ=255)
ttGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAGGCTGGt > 1:2998767/1‑69 (MQ=255)
tGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAGGCTGGTTg < 1:110909/70‑1 (MQ=255)
|
GCACTATGTCCAATAAAGAAAGTAGCGATCGGTTATAAAAGCCTTATAATAACGCCCCTAAAATTAGATTTGCCTGTTTGCGTCGCTATTCTGGAGAACCTATGACCACCACAACGCCACAACGTATTGGAGGCTGGTTG > minE/1032840‑1032979
|
| 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
