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 |
851,042 |
G→A |
50.0% |
R53R (CGC→CGT) |
yciA ← |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 851,042 | 0 | G | A | 50.0%
| ‑4.2
/ 45.2
| 52 | R53R (CGC→CGT) | yciA | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base G (14/12); new base A (23/3); total (37/15) |
| Fisher's exact test for biased strand distribution p-value = 1.28e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.62e-01 |
AGCACACCACATCGCCGACCGCAACCGGCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCA > minE/850975‑851104
|
agcaCACCACATCGCCGACCGCAACCGGCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTAcgc > 1:1151886/1‑69 (MQ=255)
agcaCACCACATCGCCGACCGCAACCGGCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTAcgc > 1:2731749/1‑69 (MQ=255)
cacaTCGCCGACCGCAACCGGCCGTAAGAAAGTCATTCCTTCAACCCGCACGGTCACTACACGAc < 1:1120890/65‑1 (MQ=255)
acaTCGCCGACCGCAACCGGCCGTAAGAAAGTCATTCCTTCAACCCGCACGGTCACTACACGAc < 1:1493995/64‑1 (MQ=255)
acaTCGCCGACCGCAACCGGCCGTAAGAAAGTCATTCCTTCAACCCGCACGGTCACTACACGAc < 1:2471109/64‑1 (MQ=255)
ctgCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg < 1:3422524/67‑1 (MQ=255)
cGGCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg < 1:3100567/69‑1 (MQ=255)
cGGCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg < 1:1417919/69‑1 (MQ=255)
cGGCCGTAAGAAAGTCATTCCTTCAACCCCCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg < 1:1065536/69‑1 (MQ=255)
cGGCCGTAAGAAAGTCATTCCTACAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg < 1:1058667/69‑1 (MQ=255)
cGGCCGTAAGAAAGTCATTCCATCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg < 1:2242693/69‑1 (MQ=255)
ggCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg > 1:1065227/1‑68 (MQ=255)
ggCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAg > 1:1779479/1‑68 (MQ=255)
ccGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAAt < 1:196863/69‑1 (MQ=255)
tCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCaa > 1:2589372/1‑69 (MQ=255)
tCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCaa > 1:2163290/1‑69 (MQ=255)
cATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAat > 1:3182290/1‑69 (MQ=255)
cATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAat > 1:415248/1‑69 (MQ=255)
cATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAat > 1:787755/1‑69 (MQ=255)
cATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAat > 1:2445577/1‑69 (MQ=255)
cATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAat > 1:2019077/1‑69 (MQ=255)
tCCTTCAACCCGCACGGTCACTACACGACCATgggg > 1:721540/1‑35 (MQ=25)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1904338/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1008285/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:778052/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:553606/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1249013/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1266828/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:3269759/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:136036/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:3016844/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:3006899/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:3000926/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:2922481/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1434385/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:247747/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1793633/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1976684/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1507194/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1633796/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:2379315/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1605331/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:253272/1‑36 (MQ=37)
tCCTTCAACCCGCACGGTCACTACACGACCATGGGc > 1:1535841/1‑36 (MQ=37)
ccTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATcc > 1:1897177/1‑69 (MQ=255)
ccTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATcc > 1:2849274/1‑69 (MQ=255)
gCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACa < 1:30582/69‑1 (MQ=255)
gCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACa < 1:218347/69‑1 (MQ=255)
gCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACa < 1:234321/69‑1 (MQ=255)
gCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACa < 1:1490792/69‑1 (MQ=255)
gCACAGTCACAACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACa < 1:2878724/69‑1 (MQ=255)
cACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTaacca > 1:1423009/1‑69 (MQ=255)
cACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTaacca > 1:2427618/1‑69 (MQ=255)
cACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTaacca > 1:1492905/1‑69 (MQ=255)
gcgACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACa < 1:3037269/56‑1 (MQ=255)
|
AGCACACCACATCGCCGACCGCAACCGGCCGTAAGAAAGTCATTCCTTCAACCCGCACAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCA > minE/850975‑851104
|
| 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
