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 |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,016,291 |
T→C |
V52A (GTA→GCA) |
rmf → |
ribosome modulation factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,016,291 | 0 | T | C | 97.8%
| 152.6
/ ‑4.0
| 45 | V52A (GTA→GCA) | rmf | ribosome modulation factor |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (9/35); total (9/36) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
CCTATCAGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGTAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGATAC > W3110S.gb/1016225‑1016358
|
ccTATCAGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGgcagt < 1:1410416/70‑1 (MQ=255)
tCAGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATg < 1:582678/70‑1 (MQ=255)
tCAGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATg < 1:3037767/70‑1 (MQ=255)
tCAGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATg < 1:751013/70‑1 (MQ=255)
tCAGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATg < 1:1692435/70‑1 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGTCGGACAGGGCAGTAATGGc < 1:1281947/70‑1 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGcc > 1:2011914/1‑71 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGcc > 1:3344042/1‑71 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGcc > 1:2300533/1‑71 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGcc > 1:3946496/1‑71 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:4100332/70‑1 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:161773/70‑1 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:2129520/70‑1 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:847100/70‑1 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:2732500/70‑1 (MQ=255)
aGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:2877650/70‑1 (MQ=255)
cGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGa > 1:3922083/1‑71 (MQ=255)
cGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGa > 1:2244620/1‑71 (MQ=255)
cGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGa > 1:3722128/1‑71 (MQ=255)
cGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGa > 1:4728/1‑71 (MQ=255)
cGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGa > 1:1064171/1‑71 (MQ=255)
aTCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGG‑GGACAGGGCAGTAATGGCCTGATTCTGtc < 1:509466/71‑1 (MQ=255)
tCAAAGGTCACATTGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:569403/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:2752288/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:3921722/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:3692132/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:3348346/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:3212526/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:2924354/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:2439119/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:2003253/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:1617915/71‑1 (MQ=255)
tCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGCCTGATTCTGtc < 1:887690/71‑1 (MQ=255)
gTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:553113/54‑1 (MQ=255)
gggAGGCTGGCGAGAAGCCATGGCGGACAGGGCAGTAATGGc < 1:1997710/42‑1 (MQ=255)
gagaAGCCATGGCGGACAGGGTAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGa < 1:2818477/71‑1 (MQ=255)
gCGGACAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCtt < 1:916152/71‑1 (MQ=255)
gCGGACAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCtt < 1:878501/71‑1 (MQ=255)
gCGGACAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCtt < 1:3681120/71‑1 (MQ=255)
gCGGACAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCtt < 1:145625/71‑1 (MQ=255)
gCGGACAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCtt < 1:11642/71‑1 (MQ=255)
aCAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCTCCTTTTGa < 1:1450975/71‑1 (MQ=255)
aCAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGa < 1:3792775/71‑1 (MQ=255)
aCAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGa < 1:750244/71‑1 (MQ=255)
aCAGGGCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGa < 1:1390689/71‑1 (MQ=255)
gggCAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGATAc < 1:1152408/71‑1 (MQ=255)
|
CCTATCAGACGCTGAATCAAAGGTCACAATGGCTGGGAGGCTGGCGAGAAGCCATGGCGGACAGGGTAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGATAC > W3110S.gb/1016225‑1016358
|
| 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
