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 |
|
A14 F34 I0 R1
|
25 |
22.0 |
717516 |
96.1% |
689532 |
148.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP009273 |
3,348,853 |
A→G |
16.0% |
K257R (AAA→AGA) |
gltB → |
glutamate synthase, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 3,348,853 | 0 | A | G | 16.0%
| 44.9
/ 3.2
| 25 | K257R (AAA→AGA) | gltB | glutamate synthase, large subunit |
| Reads supporting (aligned to +/- strand): ref base A (10/11); new base G (2/2); total (12/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.04e-01 |
GCCATTTGCCTGTTCCACCAGCGCTTCTCCACTAACACCGTACCGCGCTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAACTGCTGCTGGCAGGCGGGATGGATATCATCCGCGCCATGCGT > CP009273/3348711‑3348989
|
gCCATTTGCCTGTTCCACCAGCGCTTCTCCACTAACACCGTACCGCGCTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCa > 1:83999/1‑149 (MQ=255)
tGTTCCACCAGCGCTTCTCCACTAACACCGTACCGCGCTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAGATTCCAGCCACCGCtt > 2:112454/1‑149 (MQ=255)
tGTTCCACCAGCGCTTCTCCACTAACACCGTACCGCGCTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGAGTGCGCGTACTTATAGATTCCAGACACCGCtt > 2:243559/1‑149 (MQ=255)
accgGCGCGTCTCCCCTACCCCCGTACCGCGCTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACTCCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCt < 1:128921/149‑1 (MQ=255)
cacCGTACCGCGCTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCAc > 2:268522/1‑149 (MQ=255)
gcgcTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCCCGACGCCGCACCGTTCGTCa > 2:73561/1‑149 (MQ=255)
ccctcgccgccggcGCAACCGCTCCGCGACCTCGCGCATAACGGTCAAATCAACCCCATCACCGGTAACCGCCAATGGGCGCCCGCGCCCACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCaa < 1:8704/144‑1 (MQ=255)
aaCCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCAGCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACCCCCAACCCTTCGTCAACGAAACCGGCTCTGAc > 1:47498/1‑149 (MQ=255)
cGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTcc > 2:46428/1‑149 (MQ=255)
cGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAAAGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCCTATCCCTGACTTGCACGACGCCGCACCGTTCGTCAACGAAACCAGCTCTGACTCCAGTTc > 2:249009/1‑149 (MQ=255)
tgaTCTGGCGCATAACGGTGAAATCCACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCATTTcta < 1:237861/147‑3 (MQ=255)
ccaccTGGCGTACAACGGTGAACTCAACACCACCACCGGCAACCGCCACTGGGCTCGTGCGCGTACTTCTAAATGCCAGCCATCGCTTATCCCTGTCCTGCACGACGCCGCACCGTTCGTCAACGAAACCTGCTCTGACTCCAGTTCGa < 2:115274/145‑1 (MQ=255)
tAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGc < 2:278655/149‑1 (MQ=255)
tggAAATCGACCCCATCACCGGTAACCGCCAATGGGCGCGGGCGCGTACTTATAAATTCCAGACACCGCTTATCCCAGAAGCGCGGTATTCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCCGTTCCATGGATAACATGCTGGaa < 1:76605/147‑1 (MQ=255)
gTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGaa < 2:177568/149‑1 (MQ=255)
aaaTCAACACCATCACCGGGAACCGCCAATGGGCGCGTTCGCGTACTTATAAATACCAGTGATCCCGTACCCCTGCCCTGAACGACGCCGCACCGTCCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAActg < 2:83999/149‑1 (MQ=255)
aTCAACCCCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGCCTCCAGTTCGATGGATAACATGCTGGAActgct < 2:55738/149‑1 (MQ=255)
aaCACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAGATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATTGATAACATGCTGGAActgctgct < 1:243559/149‑1 (MQ=255)
aaCACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAGATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAActgctgct < 1:112454/149‑1 (MQ=255)
ccGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAACTGCTGCTGGCAGGCGGGGTGGata > 1:23183/1‑149 (MQ=255)
gCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAACTGCTGCTGGCAGGCGGGATGGATatc > 1:92282/1‑149 (MQ=255)
gcgcgtgcgcgtACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAATTGCTGCTGGCAGGCGGGATGGATATCATCcgcgg > 1:120400/1‑148 (MQ=255)
gcgcgtgcgcgtACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAACTGCTGCTGGCAGGCGGGATGGATATCATCCgcgc > 1:257648/1‑149 (MQ=255)
ctcgtACTAATGAATTCCAGACACCGCTTATCCCGGACCTGCACGCCGCCGCACCGTTCGTCAACGACACCGGCTCTGGCTCCAGTTCGATGGATAACATGCTGTAACTGCGGCTGGCAGGCGGGATGGATATCATCCGCGCCATGCGt < 1:335266/147‑1 (MQ=255)
cgcgtACTTATAAATTCCAGGCACCGCTTATCCCTGAGCGGCACGACGCCGCACCGTGCGTCAACGGAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTAGAACTGCTGCTGGCAGGCGGGATGGATATCAGCCGCGCCATGCGt < 1:249009/149‑1 (MQ=255)
|
GCCATTTGCCTGTTCCACCAGCGCTTCTCCACTAACACCGTACCGCGCTGGCCGCTGGCGCAACCGTTCCGCTATCTGGCGCATAACGGTGAAATCAACACCATCACCGGTAACCGCCAATGGGCGCGTGCGCGTACTTATAAATTCCAGACACCGCTTATCCCTGACCTGCACGACGCCGCACCGTTCGTCAACGAAACCGGCTCTGACTCCAGTTCGATGGATAACATGCTGGAACTGCTGCTGGCAGGCGGGATGGATATCATCCGCGCCATGCGT > CP009273/3348711‑3348989
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
