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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,559,619 |
A→G |
16.7% |
L45S (TTA→TCA) |
ddpF ← |
D‑Ala‑D‑Ala transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,559,619 | 0 | A | G | 16.7%
| 128.2
/ 19.5
| 54 | L45S (TTA→TCA) | ddpF | D‑Ala‑D‑Ala transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (23/22); new base G (6/3); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 4.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTACC > W3110S.gb/1559551‑1559686
|
gTTGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTGAg < 1:3202542/71‑1 (MQ=255)
tGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGt > 1:1121593/1‑71 (MQ=255)
gcagcaTACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGt < 1:1150500/70‑1 (MQ=255)
cagcaTACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGttt < 1:1155663/71‑1 (MQ=255)
cccATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTcaccac < 1:4118062/70‑1 (MQ=255)
aTTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCAcggcg > 1:4489640/1‑71 (MQ=255)
aaGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCt < 1:2865391/71‑1 (MQ=255)
cTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGt > 1:1190862/1‑70 (MQ=255)
cTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTa < 1:4185922/71‑1 (MQ=255)
tgCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGtt < 1:2814824/49‑1 (MQ=255)
tgCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAAt > 1:336067/1‑71 (MQ=255)
gCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGt > 1:251648/1‑66 (MQ=255)
cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTa < 1:1734476/42‑1 (MQ=255)
cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAg > 1:3530624/1‑44 (MQ=255)
cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAg > 1:3525427/1‑44 (MQ=255)
cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATc > 1:3708881/1‑70 (MQ=255)
cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATc < 1:2525942/70‑1 (MQ=255)
gCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAt > 1:3646649/1‑71 (MQ=255)
cTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAt > 1:818632/1‑70 (MQ=255)
ttttGCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCAtt > 1:3609432/1‑70 (MQ=255)
ttttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAtt > 1:1290786/1‑70 (MQ=255)
ttttGCCGCAGCCTGACTCGCCGACGATCCCTAAGATTTCACCACGGCGGATCTGTAAAt < 1:3639784/60‑1 (MQ=255)
tttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCAcggcg > 1:2138230/1‑48 (MQ=255)
tttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTaa < 1:3131424/57‑1 (MQ=255)
ttGCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTaaa > 1:2261784/1‑57 (MQ=255)
ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTcac > 1:4253384/1‑40 (MQ=255)
ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTaa > 1:3246250/1‑70 (MQ=255)
ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTa < 1:3670494/69‑1 (MQ=255)
ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAAt > 1:3251674/1‑71 (MQ=255)
gCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATgg > 1:3759855/1‑71 (MQ=255)
gCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCAt > 1:2455597/1‑71 (MQ=255)
gCAGCCTGACTCGCCGACGATCCATAAGGTTTCACCACCGCGGATCTGTAAATc < 1:4496497/54‑1 (MQ=255)
cAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATg < 1:2121503/71‑1 (MQ=255)
aGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTa < 1:583453/48‑1 (MQ=255)
aGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTa < 1:3714317/48‑1 (MQ=255)
ccTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATAc < 1:4129650/55‑1 (MQ=255)
cTGACTCGCCGACGATCCCTAAGGTTTCACCAcggc > 1:851966/1‑36 (MQ=255)
gACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATg > 1:894097/1‑71 (MQ=255)
aCTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATg < 1:1864445/70‑1 (MQ=255)
aCTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGt > 1:950113/1‑71 (MQ=255)
cTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAtt < 1:4612328/54‑1 (MQ=255)
tCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATc < 1:1099224/44‑1 (MQ=255)
ccGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCg < 1:4592418/70‑1 (MQ=255)
cgacgaTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTa < 1:3175729/71‑1 (MQ=255)
gacgaTCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAAt > 1:2573520/1‑51 (MQ=255)
gacgaTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAg < 1:3852021/71‑1 (MQ=255)
cgaTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGtt < 1:2876711/71‑1 (MQ=255)
aTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGaa < 1:3199773/55‑1 (MQ=255)
tCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACAt > 1:4001565/1‑57 (MQ=255)
tCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACAt > 1:507630/1‑57 (MQ=255)
tCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTa > 1:4371175/1‑71 (MQ=255)
ccTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCa > 1:2888600/1‑39 (MQ=255)
cTAAGGTTTCCCCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTAcc > 1:3558232/1‑70 (MQ=255)
cTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCg < 1:1014528/60‑1 (MQ=255)
cTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTAcc > 1:3865362/1‑70 (MQ=255)
|
GTTGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTACC > W3110S.gb/1559551‑1559686
|
| 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
