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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,695,634 |
G→A |
11.1% |
Q126* (CAG→TAG) |
yfhQ ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,695,634 | 0 | G | A | 11.1%
| 153.8
/ 8.9
| 54 | Q126* (CAG→TAG) | yfhQ | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (24/24); new base A (2/4); total (26/28) |
| Fisher's exact test for biased strand distribution p-value = 6.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.46e-01 |
AACCGCCATCGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGC > minE/1695563‑1695697
|
aaCCGCCATCGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAAT‑‑CGACATGATAATGGCATTTCTGc < 1:354437/71‑1 (MQ=255)
cGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCtt > 1:2609688/1‑71 (MQ=255)
cAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCAt > 1:910072/1‑71 (MQ=255)
gTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCtt < 1:208151/65‑1 (MQ=255)
gTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCtt < 1:2050098/65‑1 (MQ=255)
gTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCtt < 1:3883248/65‑1 (MQ=255)
tCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGt > 1:1400010/1‑70 (MQ=255)
tCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGt > 1:3786611/1‑70 (MQ=255)
gCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTc < 1:2017061/61‑1 (MQ=255)
gCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCaa < 1:809149/70‑1 (MQ=255)
cGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCtt < 1:1969227/59‑1 (MQ=255)
cGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCtt < 1:845223/59‑1 (MQ=255)
gAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGcc < 1:203985/71‑1 (MQ=255)
gAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGcc < 1:2260840/71‑1 (MQ=255)
gCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTACAACTCTTCATTGGTCAAGcc < 1:2245419/69‑1 (MQ=255)
tGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAActc < 1:2157796/52‑1 (MQ=255)
tGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCtt < 1:59455/54‑1 (MQ=255)
tGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTACAACTCtt < 1:393293/54‑1 (MQ=255)
aTTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACgcgc > 1:415618/1‑71 (MQ=255)
ttCCGGGTTAGCCGCAATCGCGACATGATATTGGCATTTCTGCAACTCTTCATTGGTCAAGc > 1:1596530/1‑62 (MQ=255)
ttCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAAc < 1:2854336/46‑1 (MQ=255)
ttCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAAc < 1:2293134/46‑1 (MQ=255)
ttCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCt > 1:2507616/1‑71 (MQ=255)
ttCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCt > 1:522146/1‑71 (MQ=255)
ccGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc > 1:186003/1‑64 (MQ=255)
gggTTAGCCGCAATCGCGACATGATAATGGCATTTCTACAACTCTTCATTGGTCAAGCCGACGCGCTcgcg < 1:1483664/71‑1 (MQ=255)
ttAGCCGCAATCGCGACATGATAATGGCATTTCTGCAAc < 1:1678977/39‑1 (MQ=255)
ttAGCCGCAATCGCGACATGATAATGGCATTTCTACAACTCTTCATTGGTCAAGCCGACGCGCTCGCGAc > 1:3296318/1‑70 (MQ=255)
tAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGAcc > 1:2952496/1‑70 (MQ=255)
aGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGAcc > 1:479282/1‑69 (MQ=255)
aGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCa < 1:357242/70‑1 (MQ=255)
aGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCa > 1:3684619/1‑70 (MQ=255)
aGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCa < 1:3208332/70‑1 (MQ=255)
gCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCaa < 1:1168564/70‑1 (MQ=255)
cGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTg > 1:173738/1‑43 (MQ=255)
cGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTc > 1:3348117/1‑46 (MQ=255)
gCAATCGCGACATGATAATGGCATTTCTACAACTCTTCATTGGTCAAGcc < 1:1154782/50‑1 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCaaa > 1:3545380/1‑66 (MQ=255)
cgcgACAAGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGa > 1:3191931/1‑47 (MQ=255)
gcgACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCaaa > 1:607866/1‑62 (MQ=255)
cgACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGcc < 1:1138253/71‑1 (MQ=255)
gACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGa > 1:11292/1‑44 (MQ=255)
tGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCACTcgc < 1:3091255/49‑1 (MQ=255)
gATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCggg > 1:3590394/1‑71 (MQ=255)
tGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTAt < 1:1511481/70‑1 (MQ=255)
ggCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAgc > 1:2251990/1‑56 (MQ=255)
ggCATTTCTACAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCa > 1:2741442/1‑60 (MQ=255)
gCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACC‑GGGTATTTGc < 1:3131534/71‑1 (MQ=255)
cATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGc > 1:3679179/1‑71 (MQ=255)
aTTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCa < 1:1713659/44‑1 (MQ=255)
aTTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAacac < 1:2592078/49‑1 (MQ=255)
tCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCaaa > 1:3264870/1‑43 (MQ=255)
tCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGc > 1:771226/1‑67 (MQ=255)
tCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGc > 1:2045653/1‑67 (MQ=255)
|
AACCGCCATCGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGC > minE/1695563‑1695697
|
| 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
