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 |
|
A29 F119 I1 R1
|
30 |
31.1 |
1326154 |
90.1% |
1194864 |
128.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
696,470 |
C→T |
noncoding (35/75 nt) |
glnX ← |
tRNA‑Gln |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 696,470 | 0 | C | T | 90.9%
| 62.2
/ NA
| 33 | noncoding (35/75 nt) | glnX | tRNA‑Gln |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (19/11); minor base G (1/2); total (20/13) |
| Fisher's exact test for biased strand distribution p-value = 5.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCC > NC_000913/696345‑696595
|
tGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGAAATCGCGACGAGGATTCGAACCTCGGAATGCCGGAATTAGa > 2:111894/1‑129 (MQ=38)
aTAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAATCTCGCCTAAGCTACCTTTTTTAATGTTTCTTTGTTACGATTATTCGAACATCGGAATGCCGGAATGAGAATCCgg < 1:89407/129‑1 (MQ=255)
aaGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCATAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTTGGTTTTGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTg < 1:419042/129‑1 (MQ=38)
aaGACGTGTCAACATCGCATTCGACAGTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGACTCCggag > 2:43831/1‑127 (MQ=255)
cAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCCAAGCGCGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAACGAGAATCCGGTGCCTTACCGc > 2:178190/1‑129 (MQ=255)
aaCATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCt > 1:15994/1‑129 (MQ=255)
tCGCATTCGACACTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGTGTTACTTGTTTTCTATTCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGc < 1:64495/129‑1 (MQ=25)
gCATTCGACTCTGACTGAACTCAGAATAGCAAGCAGCTCGCCGAAGCGAGCTTTTTTAAGGTGGCTGGGGTACGAGTATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGa < 2:346383/129‑1 (MQ=18)
cATTTGACATTGAACGAACGCCGAAAAGCAAAGAGCTCGCCTAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTATAATCCGGTGCCTTACCGCTTGGCGAt < 2:651707/129‑1 (MQ=21)
gACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTTACTTACCGCTTGGCGATAcccc > 2:258480/1‑129 (MQ=255)
cATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACTTCGTAATGTCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCaa < 1:617226/129‑1 (MQ=255)
cATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAACTTTTTAAATGTGACAGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCGTACCGCTTGGCGATACCCCaa > 1:41561/1‑129 (MQ=21)
taaattaaCGCAGAAAAGCAAAAAGCTCGTCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTg < 2:83311/127‑1 (MQ=255)
atgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGt > 2:29422/1‑129 (MQ=255)
aaaaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCGTCGGGTCAATGCCATACCCCAACAGGGTGCACTT‑CAAgggcaag > 2:438206/1‑124 (MQ=18)
aaaaGCTCGCCGAAGCGAGCTTGTTTAATGTTGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGTTTTTCCGTTTGGTGATATCCCAACTGGGTGCACTTACAAGGTAAGc < 1:27978/129‑1 (MQ=21)
cTCGCCGAAGCGAGCTTTTTTAATGTGGCTAAGAAACAAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCtt > 1:506257/1‑129 (MQ=25)
gAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATAAAAACATAGAAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGTTAAGAGTCTTgaagaa > 1:135280/1‑129 (MQ=21)
aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGTCTTACTGTTTTGCGATACCCCAACTGTGTGCACTTACAAGGTAAGCGTCTGGAATAAAt < 1:402287/129‑1 (MQ=21)
ttttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTAAATATTAAGAGCATAGAATAAATTGGCTgg > 2:37285/1‑129 (MQ=17)
ttttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGCTGCACTTACAAGGTCAGCGTCATGAATATATTGGGTgg > 2:343385/1‑129 (MQ=18)
gCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAAAATCCGATGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTATTGAATAAATTGGCTGGGGTACGAGGGtt > 1:503288/1‑129 (MQ=21)
tGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCg < 2:15994/129‑1 (MQ=255)
gggTACGAGGCTTCGAACCTCGGAATGCCGGAATTAGAATAAGAAGACATACAGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTCAGCGTCTTGAATAAAATGGCTGGGGTACGAGGATTCGaa > 1:203801/1‑129 (MQ=25)
cGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGGACTTAAAAGGTAAGCGTCTTGAATAAATTGGCTGGAGTACGAGGATTCGAACCTCg > 1:562861/1‑129 (MQ=25)
ggATTCGAACCTCGGAATGACGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGaa < 1:111894/129‑1 (MQ=255)
gATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGAGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAAt > 1:51916/1‑129 (MQ=255)
gATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTAGGCGATACCACAACAAGCAACACATAAAAGCTAAGCTTCGAGAATAAATTGGCTGGGGTACCACGATTCGAACCCCGGAAt > 1:236846/1‑129 (MQ=12)
tcacaCCTCGGAATGCCGGAATGAGAATCCGGTGCCTTCCCGCTTGGCTATACGCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGcc < 2:570239/125‑1 (MQ=38)
cGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGCTGCACTTAAAAGGTCAGCGTCTAGACTAAACAGGCAGGGGTACGAGGCTACGACCGTAGGAGAACCGGAATCAg > 2:177665/1‑129 (MQ=12)
tGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGTTAAGCGTCTGGAATAAATTGGCTGGAGTACGAGGATGCGAACCTAGGAATAAAGGAAACAGAATcc > 2:143022/1‑129 (MQ=25)
ggAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGTATGCATTTACATGGTAAGCGTCGTCACTAAATCGGCCGAGGTACGAGCACTCGACCGTCGGCAACCCCAAATCCGAATcccgac > 2:364253/1‑125 (MQ=12)
aaTTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAAATGGGTGCACTTACAAGGTAAGCGTCTTTAATAAATTGGCTTGGGTACGATGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGcc < 1:41102/129‑1 (MQ=37)
|
TGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCC > NC_000913/696345‑696595
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
