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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,530,282 |
A→G |
100% |
F177F (TTT→TTC) |
yfcA ← |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,530,282 | 0 | A | G | 82.0%
| 67.3
/ 6.1
| 44 | F177F (TTT→TTC) | yfcA | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base A (7/1); new base G (21/15); total (28/16) |
| Fisher's exact test for biased strand distribution p-value = 2.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.51e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AACCGCCGATGTTTGACGTTGCGTTGAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCCATCAT > minE/1530221‑1530349
|
aaCCGCCGATGTTTGACGTTGCGTTGAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:1326486/1‑64 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:2858379/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:923426/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:1899623/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:640305/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:1194066/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:1210375/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:1233595/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:2211399/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTaaa > 1:604639/1‑39 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGt > 1:1323100/1‑68 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGt > 1:1906548/1‑68 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGt > 1:2039808/1‑68 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGt > 1:524043/1‑68 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGt > 1:235905/1‑68 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGt > 1:646284/1‑68 (MQ=255)
gAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGt > 1:779702/1‑68 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAg > 1:1282052/1‑50 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2974349/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2206810/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2667643/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2278977/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2323040/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2716927/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2667803/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2541690/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:3023648/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2087820/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:458461/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:2006830/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:501132/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:1888568/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:1553391/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:1431160/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:1354266/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:1075562/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGat > 1:109437/1‑67 (MQ=255)
tGGCGTGAGCAGTGGCTTTGGCGAGGTTGAATCAGCACAGCGTAACGAAGGCCAGCGCGTAAAACGatc > 1:734135/1‑67 (MQ=255)
aGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGc < 1:2426915/69‑1 (MQ=255)
aGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGc < 1:1113643/69‑1 (MQ=255)
aGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGc < 1:1124288/69‑1 (MQ=255)
aGCAGTGGCTTTGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGc < 1:1947570/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:2403595/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:1146687/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:549662/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:1740656/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:2044235/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:3191951/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:3098131/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:2240040/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:28432/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:277619/69‑1 (MQ=255)
tttGGCGAGGTTGAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGATCCGGCAGCCGGGCCaaa < 1:2756437/69‑1 (MQ=255)
gCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCaaata < 1:2149793/67‑3 (MQ=255)
aaaTCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGa > 1:1412153/1‑59 (MQ=255)
aaaTCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCcatcat > 1:3273385/1‑68 (MQ=255)
aaaTCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCcatcat > 1:3351158/1‑68 (MQ=255)
aaaTCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCcatcat > 1:2259480/1‑68 (MQ=255)
aaaTCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCcatcat > 1:702794/1‑68 (MQ=255)
aaaTCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCcatcat > 1:1106164/1‑68 (MQ=255)
aaaTCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCcatcat > 1:960841/1‑68 (MQ=255)
|
AACCGCCGATGTTTGACGTTGCGTTGAGTAATTTGGCGTGAGCCGTGGCTTTGGCGAGGTTAAATCCGCACAGCGTAACGAAGGCCAGCGCGTAAAACGACCCGGCAGCCGGGCCAAAGAATCCATCAT > minE/1530221‑1530349
|
| 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
