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 |
|
A13 F32 I0 R1
|
15 |
16.5 |
534746 |
98.2% |
525120 |
146.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP009273 |
3,350,594 |
G→A |
19.1% |
T837T (ACG→ACA) |
gltB → |
glutamate synthase, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 3,350,594 | 0 | G | A | 19.1%
| 36.0
/ 4.6
| 21 | T837T (ACG→ACA) | gltB | glutamate synthase, large subunit |
| Reads supporting (aligned to +/- strand): ref base G (6/11); new base A (2/2); total (8/13) |
| Fisher's exact test for biased strand distribution p-value = 6.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.38e-01 |
CCACGCCTACAACCCGGACGTGGTGCGCACGCTGCAACAAGCGGTACAAAGCGGCGAGTACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAGCGATGAACAGCATCGGCGGTAATT > CP009273/3350459‑3350742
|
ccACGCCTACAACCCGGCCGTGGGACGCACGCTGCAACAAGCGGTACACAGCGGCAAGAACAGCGACTATCAGGAATACGCGAAGCGGGTTAATCGGCGTCCGGCAACCACCCTGCGCCACCTGCTGGCAATTACGCCGGGTGa > 1:110570/1‑144 (MQ=255)
ccACGCCTACAACCCGGACGTGGTGCGCACGCTGCAACAAACGGAACAAAGCAGCGAGAACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACACCGGGTGAAAAcg > 2:20197/1‑149 (MQ=255)
cAACCCGGACGTGGTGCGCACGCTGCAACAAGCGGTACAAAGCGGCGAGTACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCCGGCAATTACGCCGGGTGAAAACGCGGt < 1:207406/144‑1 (MQ=255)
ccGGACGTGGTGCGCACGCTGCAACAAGCGGTACAAAGCGGCGAGTACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACACCGGGTGAAAACGCGGTCAACATTGc > 2:278952/1‑149 (MQ=255)
ggACGTGGTGCGCACGCTGCAACAAGCGGTACAAAGCGGCGAGTACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACAt < 1:172202/144‑1 (MQ=255)
gcgcACGCTGCAACAAGCGGTACAAAGCGGCGAGTACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATCCCGCCGTGTGAAAACGCGGTCAACATTGCTGATGt < 1:106571/144‑1 (MQ=255)
acaaGCGGTACAAAGCGGCGAGTACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAg < 1:251179/144‑1 (MQ=255)
aCAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGTGAACTGTTTAAACGCTTTGATAccgcc > 2:186283/1‑149 (MQ=255)
ccAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAATTGGTAATTGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTa < 2:83881/148‑1 (MQ=255)
aTACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTAt > 1:113313/1‑144 (MQ=255)
gcgAAGCTGGTTAATTAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACACCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGgc < 1:255463/144‑1 (MQ=255)
cTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGGTCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGccc > 2:50239/1‑149 (MQ=255)
tAATGAGCGCCCGGCAACCACGCCGCGCGATCTGCTGGCAATTACACCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGccc < 1:18555/144‑1 (MQ=255)
ggAGCCTCCGGCAACCCCGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTTCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGCCCGGa < 1:5277/143‑1 (MQ=255)
gCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTTAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCTGCGATGTTTATCGGTGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAg < 2:104057/149‑1 (MQ=255)
cgATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAGc < 1:46117/144‑1 (MQ=255)
gATCTGCTGGCAATTACGCCGGGTGCAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATTGACGCGTTAATCCCGGAAGCCGACGAGGCGCTGGCGGAAGCGCTGaa > 2:57931/1‑149 (MQ=255)
gATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAGCg < 1:235214/144‑1 (MQ=255)
gATCGGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTTTCGGGGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAGCGATGaa < 2:183989/149‑1 (MQ=255)
ttACGCCGGGTGAAGACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAGCTGCTCTGATACCGGCGCGATGTCTATCGGCGCGTTAAGCCCGGAAGCCGACGAGGCGCTGGCGGAAGCGATGAACAGCATCGGCGGt < 2:123332/149‑1 (MQ=255)
tACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGACAAACGAAATATTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAGCGATGAACAGCATCGGCGGTa > 2:259629/1‑149 (MQ=255)
gCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAGCGATGAACAGCATCGGCGGTAAtt > 2:135156/1‑149 (MQ=255)
|
CCACGCCTACAACCCGGACGTGGTGCGCACGCTGCAACAAGCGGTACAAAGCGGCGAGTACAGCGACTATCAGGAATACGCGAAGCTGGTTAATGAGCGTCCGGCAACCACGCTGCGCGATCTGCTGGCAATTACGCCGGGTGAAAACGCGGTCAACATTGCTGATGTTGAACCGGCAAGCGAACTGTTTAAACGCTTTGATACCGCCGCGATGTCTATCGGCGCGTTAAGCCCGGAAGCCCACGAGGCGCTGGCGGAAGCGATGAACAGCATCGGCGGTAATT > CP009273/3350459‑3350742
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
