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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
813,910 |
A→G |
26.0% |
C60C (TGT→TGC) |
prsA ← |
phosphoribosylpyrophosphate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 813,910 | 0 | A | G | 26.0%
| 82.6
/ 31.7
| 50 | C60C (TGT→TGC) | prsA | phosphoribosylpyrophosphate synthase |
| Reads supporting (aligned to +/- strand): ref base A (15/22); new base G (9/4); total (24/26) |
| Fisher's exact test for biased strand distribution p-value = 1.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTCGC > minE/813845‑813977
|
gCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGt > 1:591546/1‑71 (MQ=255)
gCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGt > 1:1168802/1‑71 (MQ=255)
cGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAg < 1:1026309/69‑1 (MQ=255)
cGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAg < 1:1934981/69‑1 (MQ=255)
cACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTgg < 1:1342203/71‑1 (MQ=255)
gCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGatgatg < 1:1822108/71‑1 (MQ=255)
aGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaa < 1:364358/71‑1 (MQ=255)
cATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAata < 1:1920082/71‑1 (MQ=255)
aTCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAatat > 1:320377/1‑71 (MQ=255)
aTCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAata > 1:1768174/1‑70 (MQ=255)
tCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAat < 1:1219995/68‑1 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGaaaa > 1:386017/1‑65 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGaaaa > 1:1956265/1‑65 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGaaaa > 1:863940/1‑65 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACaa > 1:1017742/1‑46 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACaa > 1:1857123/1‑46 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATcacc < 1:1594597/71‑1 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATcac > 1:1172662/1‑70 (MQ=255)
ccATAACGACTAGTTCCATCAGGTTGTCGTTAGTAGGGGCACAAg > 1:19220/1‑45 (MQ=255)
ccATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAat < 1:378597/64‑1 (MQ=255)
ccATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAat < 1:1903803/64‑1 (MQ=255)
aTAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAata > 1:925714/1‑63 (MQ=255)
aTAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCaccacc > 1:1754859/1‑71 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaaaa < 1:913475/60‑1 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaaaa < 1:812520/60‑1 (MQ=255)
aCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGAc > 1:781935/1‑45 (MQ=255)
aCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACcgc > 1:1430952/1‑70 (MQ=255)
gACTAATTCCATCAGGTTGTCGTTAGTAGGGGcaca < 1:81161/36‑1 (MQ=255)
gACTAATTCCATCAGGTTGTCGTTAGTAGGGGcaca < 1:47631/36‑1 (MQ=255)
aCTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGAtgatga > 1:1035020/1‑52 (MQ=255)
aCTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTa > 1:280883/1‑70 (MQ=255)
aCTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTAc < 1:1661340/71‑1 (MQ=255)
cTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTAc < 1:283703/70‑1 (MQ=255)
tAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaaa > 1:2105689/1‑52 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGtc < 1:1404165/35‑2 (MQ=38)
aTTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTg < 1:2157173/35‑1 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAatat > 1:1688681/1‑54 (MQ=255)
cATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAatat < 1:2002589/50‑1 (MQ=255)
tCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaa < 1:1259996/43‑1 (MQ=255)
tCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTa < 1:595607/71‑1 (MQ=255)
tCAGGGTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaa < 1:2184557/43‑1 (MQ=255)
aGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAAt > 1:932185/1‑71 (MQ=255)
ttGTCGTTAGTAGGGGCACAAGTGTACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTg < 1:751137/71‑1 (MQ=255)
gTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaaaa > 1:534470/1‑38 (MQ=255)
gTCGTTAGTAGGGGCACAAGTGGACTGGATGATGaaa > 1:1223523/1‑37 (MQ=255)
tCGTTAGTAGGGGCACAAGTGGACTGGATGATGaaa < 1:1930550/36‑1 (MQ=255)
gTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGc > 1:146797/1‑71 (MQ=255)
agtagGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTg < 1:350989/70‑1 (MQ=255)
agtagGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTg < 1:1568319/70‑1 (MQ=255)
tagGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGt < 1:1975443/62‑1 (MQ=255)
ggCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTCGc < 1:92431/71‑1 (MQ=255)
gCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCa > 1:651889/1‑48 (MQ=255)
|
GCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTCGC > minE/813845‑813977
|
| 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
