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 |
|
A4 F1 I2 R1
|
67 |
32.5 |
1435938 |
95.9% |
1377064 |
112.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,606,215 |
(G)8→9 |
noncoding (72/87 nt) |
leuP ← |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,606,207 | 1 | . | G | 94.1%
| 56.3
/ ‑3.3
| 17 | noncoding (80/87 nt) | leuP | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (8/8); total (8/9) |
| 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 |
TAAAGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGT > NC_000913/4606069‑4606311
|
tAAAGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑Ga < 2:324534/139‑1 (MQ=255)
aaaGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GA‑g > 2:219064/1‑139 (MQ=255)
aaaGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GA‑g < 2:1820/139‑1 (MQ=255)
tGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GA‑ggggggggga > 2:589783/1‑137 (MQ=255)
ggACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACg < 1:109789/139‑1 (MQ=255)
aCCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAg < 1:585111/139‑1 (MQ=255)
ccACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCACCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGTCTTGAACCCCCCCGTCCGTAAGAaca > 1:181325/1‑139 (MQ=37)
ccACGGCCGTAAGGACACTAACGCCTGGAGCTAGCGCCTCTACCAAGTCCACCACCTTCGGAAAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGGG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGAaca < 2:181325/139‑1 (MQ=37)
aCGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GA‑gggggg < 2:567473/107‑1 (MQ=255)
aCGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GA‑gggggg > 1:567473/1‑107 (MQ=255)
tAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCt > 2:613592/1‑139 (MQ=255)
acTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTa > 2:166313/1‑117 (MQ=255)
acTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTa < 1:166313/117‑1 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGCCTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTc > 1:350408/1‑139 (MQ=255)
gcgTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGc < 1:613592/139‑1 (MQ=255)
cGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGt < 1:219064/139‑1 (MQ=255)
cGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGt < 1:589783/139‑1 (MQ=255)
ttCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCa > 2:231644/1‑139 (MQ=255)
cTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGt > 2:23331/1‑139 (MQ=255)
ttttttGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAgcg > 2:311051/1‑83 (MQ=255)
ttttttGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAgcg < 1:311051/83‑1 (MQ=255)
ttttGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTaa < 2:140550/66‑1 (MQ=255)
ttttGATATCGCCTCGTTTGGTGC‑GAGGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTaa > 1:140550/1‑66 (MQ=255)
|
TAAAGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGC‑GA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGT > NC_000913/4606069‑4606311
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
