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 |
|
A3 F76 I0 R1
|
30 |
23.0 |
980404 |
89.1% |
873539 |
142.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,789,616 |
C→A |
75.4% |
R2S (CGT→AGT) |
ydiE → |
PF10636 family protein YdiE |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,789,616 | 0 | C | A | 75.4%
| 37.2
/ 5.1
| 25 | R2S (CGT→AGT) | ydiE | PF10636 family protein YdiE |
| Reads supporting (aligned to +/- strand): ref base C (2/4); new base A (13/5); total (16/9) |
| Fisher's exact test for biased strand distribution p-value = 1.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAATGCGTGCCCATTCCTGACGGAATGGGCATTTCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGCGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTCCAGCCAGACACTGTTAGGTCCGGATGGCAAACTGATTATCGATCATGACGGGC > NC_000913/1789480‑1789751
|
gAATGCGTGCCCATTCCTGACGGAATGGGCATTTCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTtata < 1:157106/143‑1 (MQ=255)
cccATTTCTGACGGAATGGGCATTTGTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGCGTTATACGGATAGCa < 2:30215/143‑1 (MQ=255)
ccATTCCTGACGGAATGGGCATTTCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCGATTATTATTAATTTTTATGAGTTATACGGATAGCAg < 1:314904/143‑1 (MQ=255)
tCCTGACGGAATGGGCATTTCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGaaaa < 2:178330/143‑1 (MQ=255)
gACGGAATGGGCATTTCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTATTTTTTATGAGTTATACGGATAGCCGAAAACTcc > 1:216690/1‑142 (MQ=255)
gggCATTTCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGCGTTATACGGATAGCAGAAAACTCACGCCTGaa < 2:73351/143‑1 (MQ=255)
tgtCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGa < 2:370937/141‑1 (MQ=255)
gcgcAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGCGTTATACGGATAGCAGAAAACTCACGCCTGAAAAGGATGcga > 1:400964/1‑141 (MQ=255)
gcgcAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAAATTTCAGTTATCGGACGGTTAGCAGAGGACTCACGCCTGAAACGGATGCCa > 1:220735/1‑143 (MQ=255)
ttgttgTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGCGTTATACGGATAGCAGAAAACTCACGCCTGAAACGCATGCCAATCACaa > 2:79027/1‑143 (MQ=255)
tgtCTTATCATCATATTTCTGTTGGCTCTGGTCTGCTAGAATATTGATAATATGAATCATTGTTATATTAATTTTTATTAATTTTAATGCGTCATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCTAATCACAAGAcc < 2:26504/143‑1 (MQ=255)
ttctCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGCAACGGAGGCCAATCACAAGACCGCtc > 2:284609/1‑142 (MQ=255)
ttctCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCtt > 2:116038/1‑143 (MQ=255)
tcAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTccc > 2:290132/1‑143 (MQ=255)
tcAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAAAAAGAATCATTGTTATAACAATTACTAATAAGTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCAGAAACGGATGCCAATCACAAGACCGCTAccc > 1:25611/1‑143 (MQ=255)
aacaaATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAAGTAGAATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGAATTCCAATCACAAGACCGATCCCCCg > 2:194565/1‑143 (MQ=255)
ttgctCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGCGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGc < 2:48014/143‑1 (MQ=255)
ccATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTccagcca > 1:7492/1‑143 (MQ=255)
ttGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTCCAGCCAGACGCTGt > 1:45214/1‑143 (MQ=255)
gATAATAAGAATCATTGTTATAAACATTGTTCGCAAGCAGTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGCATTTCCAGCCAGACACCGtga > 2:217595/1‑141 (MQ=255)
aaGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCGATGCGGCGAATTGCCAGCCAGAGACTGGTAGGTGCg > 2:75145/1‑143 (MQ=255)
aaGAATCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAAATCATCAGTGAGACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTCCAGCCAGACACTGTTAGGTCCg > 1:68469/1‑143 (MQ=255)
aTCATTGTTATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTCCAGCCAGACACTGTTAGGTCCGGATg < 1:414586/143‑1 (MQ=255)
ttATATCAATTATTATTAATTTTTATGAGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTCCAGCCAGACACTCTTAGCTCCGGATGGCAAACt > 2:284402/1‑143 (MQ=255)
ttttATGAGTTATACGGAGAGCAGAAAACTCACGCCTTAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTCCAGCCAGACGCGCTACGGTCCGGAAGGCGAACGGATCATCGGTCGTGACGGGc > 1:388921/1‑143 (MQ=255)
|
GAATGCGTGCCCATTCCTGACGGAATGGGCATTTCTGCGCAACTTGTTGTCTTCTCAACAAATTACTGCTTGCTCTGGTCAGCCATAATATTGATAATAAGAATCATTGTTATATCAATTATTATTAATTTTTATGCGTTATACGGATAGCAGAAAACTCACGCCTGAAACGGATGCCAATCACAAGACCGCTTCCCCGCAGCCTATTCGGCGAATTTCCAGCCAGACACTGTTAGGTCCGGATGGCAAACTGATTATCGATCATGACGGGC > NC_000913/1789480‑1789751
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
