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 |
1,933,696 |
A→T |
20.3% |
V249V (GTT→GTA) |
lysS ← |
lysine tRNA synthetase, constitutive |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,933,696 | 0 | A | T | 20.3%
| 129.0
/ 29.7
| 59 | V249V (GTT→GTA) | lysS | lysine tRNA synthetase, constitutive |
| Reads supporting (aligned to +/- strand): ref base A (25/22); new base T (10/2); total (35/24) |
| Fisher's exact test for biased strand distribution p-value = 9.81e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
TTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGT > minE/1933628‑1933766
|
ttATGACGTACGGAAATACCTTCGTTTCGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCaccaac < 1:530284/71‑1 (MQ=255)
aTGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCaccaacca > 1:989482/1‑71 (MQ=255)
aCGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAAccacca < 1:2439472/71‑1 (MQ=255)
cGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAaccac > 1:3973233/1‑68 (MQ=255)
tACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAaccac < 1:217576/66‑1 (MQ=255)
aCGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACg > 1:108448/1‑71 (MQ=255)
cGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGc > 1:1033318/1‑71 (MQ=255)
ggAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGc > 1:3762003/1‑70 (MQ=255)
gAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCaccaa > 1:4026208/1‑58 (MQ=255)
aaaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTg < 1:2878222/71‑1 (MQ=255)
aaaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTg < 1:3909333/71‑1 (MQ=255)
aaaTACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGttt > 1:3601423/1‑70 (MQ=255)
aaTACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGa < 1:10027/71‑1 (MQ=255)
aaTACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGttt > 1:3770173/1‑69 (MQ=255)
aaTACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGttt > 1:3167801/1‑69 (MQ=255)
tACCTTCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGttt > 1:56374/1‑67 (MQ=255)
aCCTTCGTAACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCaccaac > 1:3004721/1‑54 (MQ=255)
tCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAg > 1:1538647/1‑71 (MQ=255)
gTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGtt > 1:1418443/1‑71 (MQ=255)
ttACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAg < 1:4071597/53‑1 (MQ=255)
ttACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTc < 1:312358/71‑1 (MQ=255)
aCGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAga > 1:2041964/1‑60 (MQ=255)
aCGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCg > 1:53451/1‑71 (MQ=255)
aCGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCg > 1:255040/1‑71 (MQ=255)
aCGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCg > 1:3490400/1‑71 (MQ=255)
cGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCgg > 1:203821/1‑71 (MQ=255)
cGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCg < 1:2881085/70‑1 (MQ=255)
aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc > 1:2449018/1‑71 (MQ=255)
aGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc > 1:2900841/1‑70 (MQ=255)
aGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc > 1:1448985/1‑70 (MQ=255)
gTTACGGTTGATTTCGAATACACGCTCGAAGCCaccaac < 1:2432471/39‑1 (MQ=255)
gTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGa < 1:3098223/71‑1 (MQ=255)
aCGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATAc > 1:3611396/1‑71 (MQ=255)
cGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGa < 1:451250/67‑1 (MQ=255)
cGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACg < 1:803030/71‑1 (MQ=255)
cGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACg < 1:807925/71‑1 (MQ=255)
ggTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCAGGCGCGATACg < 1:4092885/70‑1 (MQ=255)
ggTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc < 1:3029277/71‑1 (MQ=255)
ggTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc < 1:3872398/71‑1 (MQ=255)
ggTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc < 1:193866/71‑1 (MQ=255)
ttGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACa > 1:1208894/1‑52 (MQ=255)
tGATTTCGAATACACGCTCGAAGCCACCAAccacca > 1:741788/1‑36 (MQ=255)
aTTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa > 1:3631984/1‑71 (MQ=255)
tttCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGa > 1:3823431/1‑60 (MQ=255)
ttCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTc > 1:776922/1‑51 (MQ=255)
ttCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACa > 1:3673052/1‑71 (MQ=255)
tCGAATACACGCTCGACGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACAt > 1:1742955/1‑71 (MQ=255)
cGAATACACGCTCGAAGCCACCAACCAACAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACAt < 1:2267886/70‑1 (MQ=255)
gAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACAtat > 1:4106411/1‑69 (MQ=255)
gAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACAta > 1:3495070/1‑69 (MQ=255)
gAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACAta > 1:3100084/1‑69 (MQ=255)
tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAc < 1:1927913/40‑1 (MQ=255)
tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAc < 1:1808327/40‑1 (MQ=255)
tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga < 1:3602721/71‑1 (MQ=255)
cacGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACa > 1:2419638/1‑63 (MQ=255)
cacGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTc > 1:744424/1‑67 (MQ=255)
cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGa < 1:3037342/49‑1 (MQ=255)
cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATc > 1:1476339/1‑71 (MQ=255)
tCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAg > 1:1432559/1‑71 (MQ=255)
gAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTc < 1:3342719/60‑1 (MQ=255)
aGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGcgcg > 1:4067940/1‑71 (MQ=255)
gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCTCGATACGCAGGTACATGTCGAGATCCAGCGCGt < 1:47521/71‑1 (MQ=255)
gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt > 1:2937929/1‑71 (MQ=255)
gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt < 1:3471807/71‑1 (MQ=255)
ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa < 1:1699890/50‑1 (MQ=255)
ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa < 1:3563919/50‑1 (MQ=255)
ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGtt < 1:2867274/71‑1 (MQ=255)
caccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa < 1:2427662/49‑1 (MQ=255)
caccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa < 1:2265559/49‑1 (MQ=255)
accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt < 1:3777217/71‑1 (MQ=255)
accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt < 1:940860/71‑1 (MQ=255)
ccaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAgg < 1:2162682/45‑1 (MQ=255)
ccaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAgcgc < 1:1302375/65‑1 (MQ=255)
ccaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtg < 1:1778782/71‑1 (MQ=255)
aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa > 1:3974055/1‑45 (MQ=255)
aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggt > 1:2263193/1‑71 (MQ=255)
aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggt < 1:4006010/71‑1 (MQ=255)
|
TTATGACGTACGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGT > minE/1933628‑1933766
|
| 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
