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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,415,836 |
C→T |
28.6% |
noncoding (43/77 nt) |
proM ← |
tRNA‑Pro |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,415,836 | 0 | C | T | 28.6%
| 76.1
/ 25.0
| 42 | noncoding (43/77 nt) | proM | tRNA‑Pro |
| Reads supporting (aligned to +/- strand): ref base C (19/11); new base T (6/6); total (25/17) |
| Fisher's exact test for biased strand distribution p-value = 4.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.88e-01 |
GAAAACAAAAAACCCCGCCGAAGCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAATTTTTAGTTC > minE/2415766‑2415905
|
gAAAACAAAAAACCCCGCCGAAGCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCAc > 1:2324492/1‑71 (MQ=255)
aCAAAAAACCCCGCCGAAGCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTgg > 1:548331/1‑70 (MQ=255)
aaaaCCCCGCCGAAGCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTccc > 1:3533273/1‑70 (MQ=255)
aaaaCCCCGCCGAAGCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCa < 1:4770576/71‑1 (MQ=255)
gAAGCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTgcg > 1:3122587/1‑71 (MQ=255)
gAAGCGGGGTTAAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTgcg > 1:3793516/1‑71 (MQ=255)
gCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTgcg > 1:577056/1‑68 (MQ=255)
gggTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAAcc < 1:5097850/58‑1 (MQ=255)
ttttCGAATTTGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCag > 1:3108423/3‑70 (MQ=12)
ttCGAATTTGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCag < 1:2367851/69‑2 (MQ=12)
ttCGAATTTGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGc > 1:5014009/1‑71 (MQ=12)
ttCGAATTTGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGc > 1:468949/1‑71 (MQ=12)
ttCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTgc < 1:4029939/61‑1 (MQ=255)
cAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTa > 1:3907592/1‑63 (MQ=255)
cAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTg > 1:4132185/1‑71 (MQ=255)
aaaaTTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCa < 1:1771869/53‑1 (MQ=255)
tttGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGCTgcgcc < 1:1308051/70‑2 (MQ=16)
tttGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGCTgcgcc < 1:4180925/70‑2 (MQ=16)
tttGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGCTgcg > 1:2772012/2‑69 (MQ=16)
tttGGTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGCTgcg > 1:1922640/2‑69 (MQ=16)
aTTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTa > 1:4671372/1‑59 (MQ=255)
aTTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTa > 1:2281846/1‑59 (MQ=255)
aTTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTa > 1:1358257/1‑59 (MQ=255)
ttGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAAcc < 1:1723109/48‑1 (MQ=255)
ttGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAAcc < 1:4283347/48‑1 (MQ=255)
ggTCGGTGATAGAGGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTAc < 1:3823222/57‑1 (MQ=12)
ggCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGcc < 1:1147009/71‑1 (MQ=255)
gCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGcc > 1:1599202/1‑70 (MQ=255)
gatagagGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGCTGCGCCAATCACCGaa > 1:1185964/4‑71 (MQ=12)
gagagaGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGa > 1:3291001/1‑70 (MQ=255)
atagagGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTAc < 1:3747175/47‑1 (MQ=9)
gagGATTCGAACCTCCGACCCCTTCGTCCCGAACGAAGTGCGCTACCAGGCTgcgcc < 1:4244743/57‑2 (MQ=12)
cGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCtttt > 1:2900712/1‑71 (MQ=255)
ccGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCt > 1:561022/1‑43 (MQ=255)
ccGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTa > 1:2476629/1‑44 (MQ=255)
ccGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCg < 1:3706236/51‑1 (MQ=255)
ccGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAAttt > 1:2233676/1‑71 (MQ=255)
cGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAAtttt < 1:4269871/71‑1 (MQ=255)
cGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAAtttt < 1:2270917/71‑1 (MQ=255)
cGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAAtttt < 1:1273409/71‑1 (MQ=255)
gACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGaa > 1:5520604/1‑51 (MQ=255)
gACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAAtttt > 1:291555/1‑70 (MQ=255)
aCTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATAc > 1:3173002/1‑50 (MQ=255)
cTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGaaa < 1:4971219/46‑1 (MQ=255)
cTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGaaa < 1:2936474/46‑1 (MQ=255)
cTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAATTTTTAGTTc > 1:1032025/1‑70 (MQ=255)
|
GAAAACAAAAAACCCCGCCGAAGCGGGGTTCAAAATTGGTCGGCGAGAGAGGATTCGAACCTCCGACCCACTGGTCCCAAACCAGTTGCGCTACCAAGCTGCGCTACTCGCCGAAATACTGCTTTTTGAATTTTTAGTTC > minE/2415766‑2415905
|
| 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
