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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,932,021 |
C→T |
37.2% |
M203I (ATG→ATA) |
yqeF ← |
predicted acyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,932,021 | 0 | C | T | 37.2%
| 35.1
/ 33.8
| 59 | M203I (ATG→ATA) | yqeF | predicted acyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (26/11); new base T (7/15); total (33/26) |
| Fisher's exact test for biased strand distribution p-value = 6.42e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
GCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCGAGCT > minE/1931970‑1932089
|
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc < 1:3199079/69‑1 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc > 1:2349006/1‑69 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc > 1:250401/1‑69 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc > 1:427459/1‑69 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc < 1:747990/69‑1 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc > 1:151746/1‑69 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc > 1:39248/1‑69 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtctc > 1:1722490/1‑69 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtct > 1:2178196/1‑68 (MQ=255)
gCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGAtct > 1:134904/1‑68 (MQ=255)
tGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATc > 1:2154103/1‑69 (MQ=255)
cATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATc > 1:2300573/1‑69 (MQ=255)
cATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATc > 1:2211021/1‑69 (MQ=255)
cATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATc > 1:3418983/1‑69 (MQ=255)
cATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATc > 1:2762128/1‑69 (MQ=255)
cATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATc > 1:3071522/1‑69 (MQ=255)
cATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATc > 1:923720/1‑69 (MQ=255)
tCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCg < 1:2246271/68‑1 (MQ=255)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:2682106/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:262510/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:2551178/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:2866277/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:3364621/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:2316980/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:3308660/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:1364265/50‑1 (MQ=39)
cGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTc > 1:3373029/1‑69 (MQ=255)
cGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTc > 1:746652/1‑69 (MQ=255)
gTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCg > 1:1343158/1‑69 (MQ=255)
gTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCg > 1:568748/1‑69 (MQ=255)
aacaacCAACGTCTGCCCGTTACTTTGGGTCATTa > 1:2326321/1‑35 (MQ=255)
aacaacCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCTTc > 1:1357229/1‑69 (MQ=255)
aacaacCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGt > 1:769913/1‑68 (MQ=255)
aacaacCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTc > 1:482295/1‑69 (MQ=255)
aacaacCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTc > 1:748529/1‑69 (MQ=255)
aacaacCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTc > 1:1832502/1‑69 (MQ=255)
aacaacCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTc > 1:2390645/1‑69 (MQ=255)
caaccaacGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCa < 1:2684635/68‑1 (MQ=255)
caaccaacGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCa < 1:2114381/68‑1 (MQ=255)
caaccaacGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCa < 1:2123779/68‑1 (MQ=255)
caaccaacGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCa < 1:454802/68‑1 (MQ=255)
caaccaacGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCa < 1:860766/68‑1 (MQ=255)
aacGTCTGTCCGTTACTTTGGGTTATTACCGGGACg < 1:1298125/36‑1 (MQ=37)
tCTGTCCGTTACTTTGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATcgccgc > 1:778704/1‑67 (MQ=255)
tCTGTCCGTTACTTTGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATcgccgc > 1:1151132/1‑67 (MQ=255)
tCTGTCCGTTACTTTGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATcgccgc > 1:3246543/1‑67 (MQ=255)
tCTGTCCGTTACTTTGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATcgccgc > 1:1233664/1‑67 (MQ=255)
tCTGTCCGTTACTTTGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATcgccgc > 1:257162/1‑67 (MQ=255)
tCTGTCCGTTACTTTGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATcgccgc > 1:1478944/1‑67 (MQ=255)
tCTGTCCGTTACTTTGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATcgccgc > 1:1599303/1‑67 (MQ=255)
cGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCt < 1:2731148/68‑1 (MQ=255)
cGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCt < 1:1773729/68‑1 (MQ=255)
tttGGGTTATTACCGGGACGATCTCATCTTTAAATGGTCCGGCGTCAATCGCCGCTCGCGCTTTttgt < 1:2757249/68‑1 (MQ=255)
tttGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTttgt < 1:3138924/68‑1 (MQ=255)
tttGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTttgt < 1:731928/68‑1 (MQ=255)
tttGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTttgt < 1:652886/68‑1 (MQ=255)
tttGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTttgt < 1:204381/68‑1 (MQ=255)
tttGGGTTATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTttgt < 1:2671829/68‑1 (MQ=255)
ggTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCg < 1:1043784/68‑1 (MQ=255)
cATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCGAGCt < 1:1763255/69‑1 (MQ=255)
cATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCGAGCt < 1:222273/69‑1 (MQ=255)
cATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCGAGCt < 1:2272201/69‑1 (MQ=255)
cATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCGAGCt < 1:141321/69‑1 (MQ=255)
cATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCGAGCt < 1:963143/69‑1 (MQ=255)
|
GCGTGGCTGTTCATCGGTATCAACAACCAACGTCTGCCCGTTACTTTGGGTCATTACCGGGACGATCTCATCTTTAAATCGTCCGGCGTCAATCGCCGCTCGCGCTTTTTGTTGCGAGCT > minE/1931970‑1932089
|
| 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
