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 F28 I1 R1
|
176 |
31.5 |
1082462 |
98.8% |
1069472 |
138.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,489,822 |
C→T |
R120H (CGC→CAC) |
argD ← |
N‑acetylornithine aminotransferase/N‑succinyldiaminopimelate aminotransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,489,822 | 0 | C | T | 95.0%
| 57.3
/ ‑3.6
| 20 | R120H (CGC→CAC) | argD | N‑acetylornithine aminotransferase/N‑succinyldiaminopimelate aminotransferase |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (9/10); total (10/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.60e-01 |
GGTTTCGGCCCAAAGCCGTCGGAATATTTTGGCTGCCCACCCACCGAAACGGTAAACAGCGAGCGACCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGCGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGTTACTG > NC_000913/3489687‑3489950
|
ggTTTCGGCCCAAAGCCGTCGGAATATTTTGGCTGCCCACCCACCGAAACGGTAAACAGCGAGCGACCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGc < 2:115888/140‑1 (MQ=255)
gCCCAAAGCCGTCGGAATATTTTGGCTGCCCACCCACCGAAACGGTAAACAGCGAGCGACCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTa < 1:315620/140‑1 (MQ=255)
gAATATTTTGGCTGCCCACCCACCGAAACGGTAAACAGCGAGCGACCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGtt < 1:34073/140‑1 (MQ=255)
cccacccaCCGAAACGGTAAACAGCGAGCGACCATG‑AAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGa > 1:118993/1‑140 (MQ=255)
cacccaccGAAACGGTAAACAGCGAGCGACCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAg < 2:26529/140‑1 (MQ=255)
agcgaCCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATa < 1:385436/122‑1 (MQ=255)
agcgaCCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATa > 2:385436/1‑122 (MQ=255)
gcgaCCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCaa > 2:495665/1‑140 (MQ=255)
tGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGc < 2:77676/140‑1 (MQ=255)
cGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAG‑TCATAAACACCACGCGTTCGGCAAACGTTGCCTCAAt < 1:355449/138‑1 (MQ=255)
cGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAG‑TCATAAACACCACGCGTTCGGCAAACGTTGCCTCAAt > 2:355449/1‑138 (MQ=255)
cacacaGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGt < 2:509635/140‑1 (MQ=255)
acacaGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGa > 2:385128/1‑133 (MQ=255)
acacaGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGa < 1:385128/133‑1 (MQ=255)
acacaGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGtt > 1:394444/1‑140 (MQ=255)
acacaGGCGTAATGGCGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGtt > 2:250734/1‑140 (MQ=255)
acaGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGTTAc > 1:450517/1‑140 (MQ=255)
aGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGTTACTg > 1:502422/1‑140 (MQ=255)
aGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGTTACTg < 1:495665/140‑1 (MQ=255)
aGGCGTAATGGTGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCAAAGACGCAGCGCCGGTTCATTGGTGAAAACGTTACTg > 2:322911/1‑140 (MQ=255)
|
GGTTTCGGCCCAAAGCCGTCGGAATATTTTGGCTGCCCACCCACCGAAACGGTAAACAGCGAGCGACCATGAAAAGCGTTATGGAAGGCAATAATTTTGGTTTTGAACGGGCTATGACGCACACAGGCGTAATGGCGTGCCAGTTTAAAGGCGGTTTCGTTAGCTTCCGTGCCGGAGTTCATAAACACCACGCGTTCGGCAAACGTTGCCTCAATCAGTTTACGCCCAAGACGCAGCGCCGGTTCATTGGTGAAAACGTTACTG > NC_000913/3489687‑3489950
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
