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 |
|
A1 F1 I2 R1
|
524 |
31.4 |
1748232 |
97.8% |
1709770 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,103,865 |
C→T |
V371M (GTG→ATG) |
cpxA ← |
sensory histidine kinase CpxA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,103,865 | 0 | C | T | 97.1%
| 109.5
/ ‑3.9
| 35 | V371M (GTG→ATG) | cpxA | sensory histidine kinase CpxA |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (11/22); total (11/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.92e-01 |
CGCGATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGG > NC_000913/4103787‑4103937
|
cgcgATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCAttt > 1:745762/1‑81 (MQ=255)
gcgATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCAttt > 1:745771/1‑80 (MQ=255)
gcgATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTc < 1:745712/81‑1 (MQ=255)
cgATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCa < 1:745713/81‑1 (MQ=255)
aTCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAAt > 2:745777/1‑81 (MQ=255)
ccGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCaa < 2:745715/75‑1 (MQ=255)
ccGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTc < 1:745714/80‑1 (MQ=255)
cGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCg > 2:745756/1‑80 (MQ=255)
cGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCg > 2:745760/1‑80 (MQ=255)
aCGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGaa > 2:745769/1‑81 (MQ=255)
aCGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGaa < 2:745716/81‑1 (MQ=255)
cGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAAt < 1:745717/81‑1 (MQ=255)
gCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAAt > 1:745774/1‑80 (MQ=255)
gCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATa < 2:745718/81‑1 (MQ=255)
cAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAAc < 1:745720/81‑1 (MQ=255)
cAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAAc < 1:745719/81‑1 (MQ=255)
aGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACg > 1:745765/1‑81 (MQ=255)
ggACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGc < 2:745721/81‑1 (MQ=255)
gACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACg > 2:745722/1‑79 (MQ=255)
ccATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCaga < 1:745723/81‑1 (MQ=255)
gtcgtcCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCAt < 2:745724/80‑1 (MQ=255)
ccGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACaa > 2:745778/1‑81 (MQ=255)
tAATGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGt < 1:745725/81‑1 (MQ=255)
aTGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGttt > 1:745776/1‑81 (MQ=255)
aTGGTGATACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGttt < 1:745726/81‑1 (MQ=255)
gTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTc < 2:745727/80‑1 (MQ=255)
aaaCCGTCTAAATAAACCGCAAAGCCCAATGCAATAGGCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAg < 1:873710/78‑1 (MQ=255)
aTACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAgc < 2:745728/81‑1 (MQ=255)
aTACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAgc < 2:745729/81‑1 (MQ=255)
aTACCGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAg < 2:745730/80‑1 (MQ=255)
ccGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAgcgc < 2:745733/80‑1 (MQ=255)
ccGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAgcgc < 1:745732/80‑1 (MQ=255)
ccGTCTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCa < 1:745731/81‑1 (MQ=255)
cTTTATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCACttt > 2:745772/1‑81 (MQ=255)
tATCTACCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCAAGCGCACTTTcc < 1:745734/80‑1 (MQ=255)
aCCGCAAAGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCg > 1:745770/1‑81 (MQ=255)
aaaGCCCATTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCgg < 1:745735/81‑1 (MQ=255)
|
CGCGATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGG > NC_000913/4103787‑4103937
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
