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 F1 I1 R1
|
770 |
68.5 |
3470224 |
91.7% |
3182195 |
103.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,510,111 |
G→A |
G161D (GGC→GAC) |
yfeO → |
putative ion channel protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,510,111 | 0 | G | A | 92.1%
| 96.7
/ 1.4
| 38 | G161D (GGC→GAC) | yfeO | putative ion channel protein |
| Reads supporting (aligned to +/- strand): ref base G (2/1); new base A (19/16); total (21/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.37e-01 |
CCTGGGGCCGGAACATCCGATCATGACCGTCAATATCGCCCTTGCGGTTGCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGGCACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCTGGTGCACTTACTACCG > NC_000913/2509977‑2510230
|
ccTGGGGCCGGAACATCCGATCATGACCGTCAATATCGCCCTTGCGGTTGCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACt > 2:1321210/1‑139 (MQ=255)
aCCGTCAATATCGCCCTTGCGGTTGCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATAtttt > 1:1521721/1‑139 (MQ=255)
tCAATATCGCCCTTGCGGTTGCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCa > 1:838302/1‑139 (MQ=255)
gCGGTTGCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCa > 2:829887/1‑139 (MQ=255)
gCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTgcggcg < 2:656984/102‑1 (MQ=255)
gCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTgcggcg > 1:656984/1‑102 (MQ=255)
gCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCaaa > 2:429984/1‑121 (MQ=255)
gCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCaaa < 1:429984/121‑1 (MQ=255)
gCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTg > 2:1279983/1‑139 (MQ=255)
gCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTg > 1:933102/1‑139 (MQ=255)
tGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGtt < 2:1707242/139‑1 (MQ=255)
ggCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTc < 1:1279983/139‑1 (MQ=255)
ggCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTc < 2:933102/139‑1 (MQ=255)
gcgcgTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTc > 2:408804/1‑122 (MQ=255)
gcgcgTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTc < 1:408804/122‑1 (MQ=255)
gcgcgTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGtctc > 1:1224729/1‑139 (MQ=255)
cgTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAAt < 1:1676751/103‑1 (MQ=255)
cgTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAAt > 2:1676751/1‑103 (MQ=255)
gTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTg < 1:1321210/139‑1 (MQ=255)
aaCCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTgcgc < 1:829887/139‑1 (MQ=255)
tGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATgg < 1:715835/94‑1 (MQ=255)
tGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATgg > 2:715835/1‑94 (MQ=255)
tttAGCCTCTGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCt > 1:1279695/1‑139 (MQ=255)
tGCCGGAACCATCGGCGCACTGTTTGGCACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCTGGTGCACtt > 1:273387/1‑139 (MQ=255)
tGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCa > 2:375/1‑60 (MQ=255)
tGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCa < 1:375/60‑1 (MQ=255)
tGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTgc < 2:1316523/108‑1 (MQ=255)
tGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTgc > 1:1316523/1‑108 (MQ=255)
tGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATggcgg < 1:998906/122‑1 (MQ=255)
tGCCGGAACCATCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATggcgg > 2:998906/1‑122 (MQ=255)
aTCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTgcg > 2:261058/1‑99 (MQ=255)
aTCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTgcg < 1:261058/99‑1 (MQ=255)
aTCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCTGGTg < 1:915002/124‑1 (MQ=255)
aTCGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCTGGTg > 2:915002/1‑124 (MQ=255)
tCGGCGCACTGTTTGGCACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCTGGTGCACTTACTACCg < 2:279836/135‑1 (MQ=255)
tCGGCGCACTGTTTGGCACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCTGGTGCACTTACTACCg > 1:279836/1‑135 (MQ=255)
cGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGc < 2:1317447/47‑1 (MQ=255)
cGGCGCACTGTTTGACACTCCTGTTGCGGCGGCGTTGATATTTTCGc > 1:1317447/1‑47 (MQ=255)
|
CCTGGGGCCGGAACATCCGATCATGACCGTCAATATCGCCCTTGCGGTTGCCATTGGCGCTCGTCTGTTACCGCGCGTCAACCGAATGGAGTGGACTATTTTAGCCTCTGCCGGAACCATCGGCGCACTGTTTGGCACTCCTGTTGCGGCGGCGTTGATATTTTCGCAAACCTTAAATGGCAGTAGTGAAGTTCCGCTATGGGATCGTCTCTTTGCGCCGTTAATGGCGGCAGCAGCTGGTGCACTTACTACCG > NC_000913/2509977‑2510230
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
