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 F81 I0 R1
|
263 |
75.1 |
3021180 |
96.0% |
2900332 |
137.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,646,198 |
G→A |
44.4% |
A272T (GCC→ACC) |
rlmJ → |
23S rRNA m(6)A2030 methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,646,198 | 0 | G | A | 44.4%
| ‑1.5
/ 5.8
| 9 | A272T (GCC→ACC) | rlmJ | 23S rRNA m(6)A2030 methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (2/3); new base A (2/2); total (4/5) |
| 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 |
CCCGCCGTGGAAACTGGAACAACAGATGAATAACGTGCTGCCGTGGCTGCACAGCAAACTGGTTCCGGCAGGCACCGGGCACGCCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATCGCGGTAATCAACGATAAGGACACTTTGTCATGACTAAACACTATGA > NC_000913/3646116‑3646315
|
cccGCCGTGGAAACTGGAACAACAGATGAATAACGTGCTGCCGTGGCTGCACAGCAAACTGGTTCCGGCAGGCACCGGGCACGCCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTa > 5:345347/1‑149 (MQ=255)
cgTGGAAACTGGAACAACAGATGAATAACGTGCTGCCGTGGCTGCACAGCAAACTGGTTCCGGCAGGCACCGGGCACGCCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATc < 1:24234/149‑1 (MQ=255)
ggAAACTGGAACAACAGATGAATAACGTGCTGCCGTGGCTGCACAGCAAACTGGTTCCGGCAGGCACCGGGCACACCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATcgcg > 5:237358/1‑149 (MQ=255)
ggAAACTGGAACAACAGATGAATAACGTGCTGCCGTGGCTGCACAGCAAACTGGTTCCGGCAGGCACCGGGCACACCACCGTAAGCTGGATCGTGCCGGAGTAATAGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACATTcgcg > 5:237362/1‑149 (MQ=255)
cacaGCAAACTGGTTCCGGCAGGCACCGGGCACGCCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATCGCGGTAATCAACGATAAGGACACTTTGTCATGACTAAACACTAt < 6:345347/149‑1 (MQ=255)
gaggaaaCTGGTTCCGGCATGCACCGGGCACACCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATCGCGGTAATCAACGATAAGGACACTTTGTCATGACTAATCACTATGa < 6:237362/145‑1 (MQ=255)
caGCAAACTGGTTCCGGCAGGCACCGGGCACACCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATCGCGGTAATCAACGATAAGGACACTTTGTCATGACTAAACACTATGa < 6:237358/149‑1 (MQ=255)
aGCAAACTGGTTCCGGCAGGCACCGGGCACGCCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATCGCGGTAATCAACGa < 7:36495/116‑1 (MQ=255)
aGCAAACTGGTTCCGGCAGGCACCGGGCACGCCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATCGCGGTAATCAACGa > 8:36495/1‑116 (MQ=255)
|
CCCGCCGTGGAAACTGGAACAACAGATGAATAACGTGCTGCCGTGGCTGCACAGCAAACTGGTTCCGGCAGGCACCGGGCACGCCACCGTAAGCTGGATCGTGCCGGAGTAATTGCAGCCATTGCTGGCACCTATTACGTCTCGCGCTACAATCGCGGTAATCAACGATAAGGACACTTTGTCATGACTAAACACTATGA > NC_000913/3646116‑3646315
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
