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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,728,118 |
(C)8→9 |
coding (1254/1455 nt) |
xylB ← |
xylulokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,728,110 | 1 | . | C | 88.2%
| 45.0
/ 0.6
| 17 | coding (1262/1455 nt) | xylB | xylulokinase |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (5/10); total (6/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 |
CTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑CCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACG > NC_000913/3728000‑3728235
|
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAgctgct < 2:1034873/139‑1 (MQ=255)
aGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑ccccccc‑ccgtac < 2:725534/119‑6 (MQ=255)
aGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑ccccccc‑ccgtac > 1:725534/1‑114 (MQ=255)
aTGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCt < 2:169689/139‑1 (MQ=255)
aCTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAAC‑CCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGatat < 2:423676/139‑1 (MQ=255)
cTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCa > 1:166083/1‑139 (MQ=255)
tAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATACGCAGCGATCTGCGCAAGCCTTGCTGCGCCCAGTGCTGGCTACAC‑AT‑CCCCCCCACGTACCGTAATCGAGCCGCCAACCGCTGATATACTCCAACctctt > 2:480638/1‑138 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTCCGGTAATCGTGCTGCTGACCGCTGCGAGCCGCCGACATCTgc > 1:276765/1‑138 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CATACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa < 2:760085/139‑1 (MQ=255)
gTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGAc > 2:893675/1‑139 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg > 2:859170/1‑139 (MQ=255)
aacaaTTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTTCAGCAATTTTACTGGCGACCGCTGCTACCCCCCACCACCTGACAACAGTAc > 2:943162/1‑139 (MQ=255)
tCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTa < 1:135981/139‑1 (MQ=255)
gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc < 1:943162/139‑1 (MQ=255)
tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 1:859170/139‑1 (MQ=255)
tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 2:61917/139‑1 (MQ=255)
cgccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGt > 1:674907/1‑139 (MQ=255)
gCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTaa < 1:893675/139‑1 (MQ=255)
cAGTGCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATg < 2:674907/139‑1 (MQ=255)
gCTGGCCCCAC‑ATCCCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACg < 2:645958/139‑1 (MQ=255)
|
CTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑CCCCCCC‑CGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACG > NC_000913/3728000‑3728235
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ 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
