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 |
656,044 |
T→C |
26.5% |
F44L (TTC→CTC) |
ycbS → |
predicted outer membrane usher protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 656,044 | 0 | T | C | 26.5%
| 77.9
/ 33.0
| 49 | F44L (TTC→CTC) | ycbS | predicted outer membrane usher protein |
| Reads supporting (aligned to +/- strand): ref base T (20/16); new base C (7/6); total (27/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTGGGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAACG > minE/655976‑656106
|
gtggGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCtttttt < 1:1051245/70‑1 (MQ=255)
tggGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCa < 1:2096009/71‑1 (MQ=255)
tggGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCa < 1:2114898/71‑1 (MQ=255)
ggCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCaaa < 1:962655/71‑1 (MQ=255)
ggCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCaa < 1:528101/70‑1 (MQ=255)
cTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAg < 1:2029191/70‑1 (MQ=255)
gtggtgTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatga < 1:911895/71‑1 (MQ=255)
gtgtTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATc > 1:555091/1‑70 (MQ=255)
tttGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTc < 1:1193308/57‑1 (MQ=255)
tttGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTc < 1:138402/71‑1 (MQ=255)
tttGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTc < 1:741583/71‑1 (MQ=255)
tgtgTCGGGAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCaa > 1:1265127/1‑71 (MQ=255)
gTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtg > 1:1200930/1‑61 (MQ=255)
gTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtg > 1:1408396/1‑61 (MQ=255)
gTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCACAAt > 1:575675/1‑60 (MQ=255)
ttCAATGCATAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAg > 1:1059754/1‑46 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCaaa < 1:1149640/45‑1 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCaaa < 1:195678/45‑1 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAg > 1:1858299/1‑46 (MQ=255)
ttCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGcc < 1:1936620/66‑1 (MQ=255)
cAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTg > 1:203272/1‑70 (MQ=255)
tGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAAt < 1:630401/54‑1 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatgat > 1:1710497/1‑44 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatgat > 1:1693029/1‑44 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatga > 1:232718/1‑43 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt > 1:83702/1‑64 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGAttt > 1:831984/1‑64 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTCTCaaa > 1:1782643/1‑38 (MQ=255)
cacaAGCTGAAACCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGt > 1:1018730/1‑71 (MQ=255)
caAGCTGAAACCTGGTTCGATCCTGCTTTTCTCAAAgat < 1:839206/39‑1 (MQ=255)
aaGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTc < 1:1484130/71‑1 (MQ=255)
gCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAgatg > 1:1602541/1‑37 (MQ=255)
cTGAAACCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGaa < 1:1577307/71‑1 (MQ=255)
gAAACCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGaa < 1:987035/69‑1 (MQ=255)
aaaCCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGaaa < 1:533672/69‑1 (MQ=255)
aaaCCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGaaaa < 1:1099017/70‑1 (MQ=255)
aaaCCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTACGaaaa < 1:284618/70‑1 (MQ=255)
aaCCTGGTTCGATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAg > 1:1052816/1‑71 (MQ=255)
cTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGAc < 1:199145/71‑1 (MQ=255)
ggTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACa > 1:1952688/1‑70 (MQ=255)
ttCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtgg > 1:75081/1‑37 (MQ=255)
ttCGATCCTGCTTTTTTCAAAGATGATCCCTCAAtgg > 1:1234603/1‑37 (MQ=255)
gATCCTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAAt < 1:272917/71‑1 (MQ=255)
ccTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAAc > 1:1162064/1‑71 (MQ=255)
ccTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAAc > 1:1474754/1‑71 (MQ=255)
cTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACaaaaaa > 1:983626/1‑66 (MQ=255)
cTGCTTTTCTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAACg > 1:938523/1‑71 (MQ=255)
cTGCTTTTCTCAAAGATGATCACTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAACg > 1:595448/1‑71 (MQ=255)
gCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATaa > 1:1020671/1‑67 (MQ=255)
cTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAACg > 1:2086327/1‑68 (MQ=255)
|
GTGGGCTGGTGGTGTTTGTGTCGGCAGCGTTCAATGCACAAGCTGAAACCTGGTTCGATCCTGCTTTTTTCAAAGATGATCCCTCAATGGTGGCCGATTTGTCTCGTTTCGAAAAAGGACAAAAAATAACG > minE/655976‑656106
|
| 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
