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 |
2,897,573 |
A→G |
27.9% |
V135V (GTA→GTG) |
mpl → |
UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,897,573 | 0 | A | G | 27.9%
| 47.7
/ 18.8
| 50 | V135V (GTA→GTG) | mpl | UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase |
| Reads supporting (aligned to +/- strand): ref base A (25/11); new base G (10/4); total (35/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCAAAACCACCACCGCGGGAATGGCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCTTTGTTA > minE/2897506‑2897637
|
gCAAAACCACCACCGCGGGAATGGCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTaa > 1:875091/1‑69 (MQ=255)
gCAAAACCACCACCGCGGGAATGGCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTaa > 1:2464351/1‑69 (MQ=255)
gCAAAACCACCACCGCGGGAATGGCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTaa > 1:2436922/1‑69 (MQ=255)
gCAAAACCACCACCGCGGGAATGGCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTaa > 1:2385971/1‑69 (MQ=255)
aTGGCGACCTGGATTCTGGAACAATGCGGTTACAAACCGGGATTTGTGATCGGCGGTGTGCCGGGGAAc < 1:3326650/69‑1 (MQ=255)
aTGGCGACCTGGATTCTGGAACAATGCGGTTACAAACCGGGATTTGTGATCGGCGGTGTGCCGGGGAAc < 1:2355143/69‑1 (MQ=255)
aTGGCGACCTGGATTCTGGAACAATGCGGTTACAAACCGGGATTTGTGATCGGCGGTGTGCCGGGGAAc < 1:1932675/69‑1 (MQ=255)
aTGGCGACCTGGATTCTGGAACAATGCGGTTACAAACCGGGATTTGTGATCGGCGGTGTGCCGGGGAAc < 1:1695252/69‑1 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa < 1:995654/45‑1 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa > 1:834167/1‑45 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa > 1:797649/1‑45 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa > 1:3091360/1‑45 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa < 1:3087858/45‑1 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa < 1:2286848/45‑1 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa > 1:2118354/1‑45 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa < 1:149111/45‑1 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGtgtg > 1:1818550/1‑57 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAAc > 1:24131/1‑66 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:110912/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:1641817/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:1988860/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:573454/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:216072/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:3246581/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:1424355/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACt > 1:2442609/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGAGCCGGGGAACt > 1:1454959/1‑67 (MQ=255)
gCGACCTGGATTCTGGAACAGTGTGG‑TACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTg > 1:1006392/1‑69 (MQ=255)
cGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTa < 1:2430740/44‑1 (MQ=255)
aCAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCa < 1:1164132/66‑1 (MQ=255)
aCAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCa < 1:1262682/66‑1 (MQ=255)
aCAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCa < 1:647105/66‑1 (MQ=255)
aCAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCa < 1:677274/66‑1 (MQ=255)
cAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCa < 1:2877069/65‑1 (MQ=255)
tACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGc < 1:1242117/69‑1 (MQ=255)
tACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGc < 1:2742526/69‑1 (MQ=255)
tACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGAGAAAGc < 1:435539/69‑1 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAg > 1:1172927/1‑44 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCg > 1:727812/1‑69 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCg > 1:861777/1‑69 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCg > 1:539454/1‑69 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCg > 1:126054/1‑69 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCg > 1:2409504/1‑69 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCg > 1:2222582/1‑69 (MQ=255)
aCAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCg > 1:1900793/1‑69 (MQ=255)
cTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCTTTGt < 1:1297900/69‑1 (MQ=255)
cTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCTTTGt < 1:1325467/69‑1 (MQ=255)
cTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCTTTGt < 1:2032734/69‑1 (MQ=255)
tttGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCttt > 1:2690609/1‑66 (MQ=255)
tttGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCttt > 1:90510/1‑66 (MQ=255)
tttGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCttt > 1:2532228/1‑66 (MQ=255)
tttGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCttt > 1:506372/1‑66 (MQ=255)
tttGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCttt > 1:2117683/1‑66 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGtt > 1:978642/1‑68 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:2779508/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:722957/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:537348/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:523830/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:12032/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:2829767/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:2664635/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:2594457/1‑69 (MQ=255)
ttGTGATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCGCGTCTGGGCGAAAGCGACTTCTTTGTTa > 1:185250/1‑69 (MQ=255)
|
GCAAAACCACCACCGCGGGAATGGCGACCTGGATTCTGGAACAGTGTGGTTACAAACCGGGCTTTGTAATCGGCGGTGTGCCGGGGAACTTTGAGGTTTCGGCTCATCTGGGCGAAAGCGACTTCTTTGTTA > minE/2897506‑2897637
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
