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 |
|
A12 F1 I1 R1
|
65 |
25.3 |
1027584 |
98.0% |
1007032 |
120.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,258,242 |
(A)8→9 |
intergenic (‑232/+43) |
yhaO ← / ← tdcG |
putative transporter/L‑serine dehydratase 3, anaerobic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,258,234 | 1 | . | A | 94.1%
| 53.4
/ ‑3.0
| 17 | intergenic (‑224/+51) | yhaO/tdcG | putative transporter/L‑serine dehydratase 3, anaerobic |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base A (9/7); total (10/7) |
| 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 |
GTTATTAGAATAAAGAAATGATACGCGCGAGGTCAGAGAAAATCTTCACAATCAAGACTTTGAAATAACGGAGATGGATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCAC‑AA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATGTTTCGCGGTATTTATCGTTCATATCTTTGCCGGTTTCATA > NC_000913/3258096‑3258365
|
gTTATTAGAATAAAGAAATGATACGCGCGAGGTCAGAGAAAATCTTCACAATCAAGACTTTGAAATAACGGAGATGGATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATcac < 1:421678/139‑1 (MQ=255)
aaTAAAGAAATGATACGCGCGAGGTCAGAGAAAATCTTCACAATCAAGACTTTGAAATAACGGAGATGGATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCAC‑aa‑aaaaaa < 1:331336/139‑1 (MQ=255)
tAAAGAAATGATACGCGCGAGGTCAGAGAAAATCTTCACAATCAAGACTTTGAAATAACGGAGATGGATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCAC‑aa‑aaaaaaag > 1:132625/1‑137 (MQ=255)
aaaTGATACGCGCGAGGTCAGAGAAAATCTTCACAATCAAGACTTTGAAATAACGGAGATGGATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGca < 1:223915/139‑1 (MQ=255)
tCAAGACTTTGAAATAACGGAGATGGATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATg > 2:145880/1‑139 (MQ=255)
gATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCa < 2:89297/123‑1 (MQ=255)
gATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCa > 1:89297/1‑123 (MQ=255)
aGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGtc < 2:185097/139‑1 (MQ=255)
tCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCg < 2:39992/110‑1 (MQ=255)
tCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCg > 1:39992/1‑110 (MQ=255)
gctaataAATTAATCGCAGAAAAATATCGATTTCCTATTATCGGCGGATCAC‑AATACAAAAGGTTATACTCATTTCACGCAGGGATGGATCATGCCAGCATAGTTAGCCGCAGACCCCTTTAATGGCCAGTCCTCcgct > 1:94472/2‑138 (MQ=255)
taAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCGAGGATGAAAGCTGACAACAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATg > 2:308890/1‑139 (MQ=255)
aaTCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAACAATGTCAGCCGCAGACCACTTTAATGGCCTGTCCTCCGCGTGATGTTTcgc < 1:308890/139‑1 (MQ=255)
tatTCATTCTCTATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATGTTTCGCGGTATTTATCGtt > 2:46492/1‑139 (MQ=255)
tATTTGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATGTTTCGCGGTATTTATCGTTCATATCTTTGc > 2:256216/1‑139 (MQ=255)
tttGCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATGTTTCGCGGTATTTATCGTTCATATCTTTGCCg < 1:145880/139‑1 (MQ=255)
gCGGCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATGTTTCGCGGTATTTATCGTTCATATCTTTGCCGGtt > 2:295732/1‑139 (MQ=255)
gCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGa > 1:374501/1‑99 (MQ=255)
gCAGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGa < 2:374501/99‑1 (MQ=255)
aGATCACAAA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATGTTTCGCGGTATTTATCGTTCATATCTTTGCCGGTTTCATa > 1:355819/1‑139 (MQ=255)
|
GTTATTAGAATAAAGAAATGATACGCGCGAGGTCAGAGAAAATCTTCACAATCAAGACTTTGAAATAACGGAGATGGATAAGAATTTTCTACTAAATTAATCGCAGGAGAATATTCATTCTCTATTTGCGGCAGATCAC‑AA‑AAAAAAGGTGCACATTTGTGCACCCAAGGATGAAAGCTGACAGCAATGTCAGCCGCAGACCACTTTAATGGCCAGTCCTCCGCGTGATGTTTCGCGGTATTTATCGTTCATATCTTTGCCGGTTTCATA > NC_000913/3258096‑3258365
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
