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 |
2,552,329 |
C→G |
31.5% |
V312V (GTC→GTG) |
yibD → |
predicted glycosyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,552,329 | 0 | C | G | 31.5%
| 83.4
/ 50.1
| 73 | V312V (GTC→GTG) | yibD | predicted glycosyl transferase |
| Reads supporting (aligned to +/- strand): ref base C (26/24); new base G (20/3); total (46/27) |
| Fisher's exact test for biased strand distribution p-value = 4.29e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAGATATTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGC > minE/2552270‑2552390
|
gagaTATTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAg > 1:1199714/1‑69 (MQ=255)
gagaTATTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAg > 1:1334375/1‑69 (MQ=255)
gagaTATTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAg > 1:2729931/1‑69 (MQ=255)
gagaTATTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAg > 1:1865825/1‑69 (MQ=255)
atatTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGc < 1:2593541/68‑1 (MQ=255)
atatTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGc < 1:2929346/68‑1 (MQ=255)
atatTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGc < 1:1754368/68‑1 (MQ=255)
gtatgtatAAGCGCCTGATTACCAATGTGCGCAGCGTTAAGGTCGGTTACGAGGCGTTACTGTGGTCt < 1:620681/68‑1 (MQ=255)
gtatgtatAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCt < 1:2580655/68‑1 (MQ=255)
tgtatAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTcc > 1:902197/1‑69 (MQ=255)
tgtatAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTcc > 1:1445697/1‑69 (MQ=255)
tataAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGtt < 1:94176/43‑1 (MQ=255)
tataAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGtt < 1:26838/43‑1 (MQ=255)
tataAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGtt < 1:2951179/43‑1 (MQ=255)
tataAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGtt < 1:2965016/43‑1 (MQ=255)
tataAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTcc > 1:2474142/1‑67 (MQ=255)
tataAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCg > 1:1705708/1‑68 (MQ=255)
tataAGCGCCTGATTACCAATGTGCCCAGCGTGAAGGTCGGtt < 1:703548/43‑1 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCtt > 1:2797702/1‑69 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCtt > 1:1083633/1‑69 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCtt > 1:930322/1‑69 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCtt > 1:2322070/1‑69 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCtt > 1:71652/1‑69 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCt < 1:1497322/68‑1 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCt < 1:1398864/68‑1 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCt > 1:2301096/1‑68 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCt < 1:2683922/68‑1 (MQ=255)
taAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACAAGGCGTTACTGTGGTCTTTCCGCt > 1:281408/1‑68 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGt > 1:3352924/1‑48 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:773476/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:3070527/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:778900/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:705862/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:2616111/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:1989106/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:2069017/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:1359240/1‑69 (MQ=255)
aGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGATACCAGGCGTTACTGTGGTCTTTCCGCTTAt > 1:2119838/1‑69 (MQ=255)
gcCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGc < 1:1810359/69‑1 (MQ=255)
gcCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGGCTTTCCGCTTATGGc < 1:2847177/69‑1 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTa > 1:2767569/1‑36 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGc > 1:2386387/1‑61 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCtt > 1:2303895/1‑63 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCtt > 1:1559878/1‑63 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:622945/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:519380/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:575157/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:1807435/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:2390429/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:867866/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:113404/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:979164/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:10372/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:30666/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:2127181/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:264190/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTa > 1:3162306/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACCAGGCGATACTGTGGTCTTTCCGCTTa > 1:2158284/1‑64 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTGAAGGTGGGTTACAAGGCGTTACTGTGGTCTTTCCGCtt > 1:908983/1‑63 (MQ=255)
ccTGATTACCAATGTGCGCAGCGTCAAGGTGGGTTACCAGGCGTTACTGTTGTCTTTCCGCTTa > 1:710150/1‑64 (MQ=255)
ttACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACtgtg > 1:1266639/1‑46 (MQ=255)
gTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCt < 1:1402934/40‑1 (MQ=255)
tGAAGGTCGGTTACCGGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:2419106/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:159793/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:1309329/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:2662479/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:1679401/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:2148172/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:2925790/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:2081044/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:466992/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:3236169/69‑1 (MQ=255)
tGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGc < 1:3232250/69‑1 (MQ=255)
|
GAGATATTTACTTCCGGTATGTATAAGCGCCTGATTACCAATGTGCGCAGCGTGAAGGTCGGTTACCAGGCGTTACTGTGGTCTTTCCGCTTATGGCAATGGCGCGACAAAACGCGGTCGC > minE/2552270‑2552390
|
| 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
