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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,137,307 |
A→G |
55.8% |
G188G (GGT→GGC) |
truB ← |
tRNA pseudouridine synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,137,307 | 0 | A | G | 55.8%
| 13.6
/ 45.2
| 61 | G188G (GGT→GGC) | truB | tRNA pseudouridine synthase |
| Reads supporting (aligned to +/- strand): ref base A (5/22); new base G (18/16); total (23/38) |
| Fisher's exact test for biased strand distribution p-value = 7.93e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
CCGGATATTTACTTACCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCAT > minE/2137243‑2137374
|
ccGGATATTTACTTACCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCAccc < 1:1918714/68‑1 (MQ=255)
ccGGATATTTACTTACCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCAccc < 1:2911770/68‑1 (MQ=255)
ccGGATATTTACTTACCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCAccc < 1:2800029/68‑1 (MQ=255)
tttACTTACCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGtcatc > 1:1122222/1‑69 (MQ=255)
tttACTTACCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGtcat > 1:727160/1‑68 (MQ=255)
acttacCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGtcatca < 1:1596268/67‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:1852467/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:1031119/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:940054/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:2561199/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:839282/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:3135169/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:3233151/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:746069/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:3381719/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:650198/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:709390/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:1215347/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:1195247/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:1573370/63‑1 (MQ=255)
ccAGACGACGCAAGTAAATAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:1660680/63‑1 (MQ=255)
gACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGa < 1:968483/69‑1 (MQ=255)
gACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGa < 1:2423797/69‑1 (MQ=255)
ggCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGatat < 1:1082734/69‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGatat < 1:1746818/68‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGatat < 1:2261311/68‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:2173170/69‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:2297205/69‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:166751/69‑1 (MQ=255)
cgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:1760907/68‑1 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1099491/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:3308389/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:355264/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:582229/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:3160136/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:658112/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:749617/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1292105/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:3134899/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1338693/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1363783/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:2788442/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1453502/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:194312/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1886243/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1876516/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTCCGGATATAAGTCCCtttt > 1:611783/1‑68 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCCTCAATGATAGTGCGGATAAAAGTGCCTTTTg > 1:3351491/1‑69 (MQ=255)
aTGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAatga < 1:3383302/41‑1 (MQ=19)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg > 1:1065793/1‑69 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg > 1:991624/1‑69 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:793578/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:882267/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:315293/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg > 1:3088524/1‑69 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:2206041/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:1095463/69‑1 (MQ=255)
caGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtcc < 1:2040328/69‑1 (MQ=255)
caGCCGAGTTTTTCACCCAGGGCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtcc < 1:2767693/69‑1 (MQ=255)
ccGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtccagc < 1:3264520/69‑1 (MQ=255)
ccGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtccagc < 1:890786/69‑1 (MQ=255)
aCCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCAt < 1:188888/68‑1 (MQ=255)
|
CCGGATATTTACTTACCGCCAGACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCAT > minE/2137243‑2137374
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
