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 |
1,994,046 |
C→T |
67.9% |
V702M (GTG→ATG) |
speC ← |
ornithine decarboxylase, constitutive |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,994,046 | 0 | C | T | 67.9%
| 68.8
/ 42.3
| 84 | V702M (GTG→ATG) | speC | ornithine decarboxylase, constitutive |
| Reads supporting (aligned to +/- strand): ref base C (2/25); new base T (29/28); total (31/53) |
| Fisher's exact test for biased strand distribution p-value = 7.87e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGGTGACCCGTTTTTTTTATTCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAC > minE/1993992‑1994112
|
aGGTGACCCGTTTTTTTTATTCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCgg > 1:2872712/1‑69 (MQ=255)
aGGTGACCCGTTTTTTTTATTCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCgg > 1:1442802/1‑69 (MQ=255)
ggTGACCCGTTTTTTTTATTCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCGGt < 1:639920/69‑1 (MQ=255)
ttttttttATTCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCGGTTTCGCtata < 1:3075741/69‑1 (MQ=255)
ttttttttATTCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCGGTTTCGCtata < 1:2029905/69‑1 (MQ=255)
ttCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCGGTTTCGCtata < 1:719388/60‑1 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGtt > 1:2223205/1‑49 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCt > 1:2837934/1‑64 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:3106037/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:1927503/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:51479/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:350983/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:3328721/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:3279068/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:3273896/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:454333/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:3086194/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:2588836/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:2697444/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:2797634/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:2937456/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:794294/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:858761/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:1353805/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:1231394/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:1517977/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:1530388/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:860774/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:1546283/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:953812/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:1647980/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCaa > 1:567510/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCa > 1:362789/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCTATAGACACCTTGCa > 1:2612703/1‑68 (MQ=255)
ttACTTCAACACATAACCGTACAACCGTTTCATGCCATCCGCATCGCTTTCGCTATAGACACCt > 1:2497121/1‑64 (MQ=255)
caTAACCGTACAGCCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1502062/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:96804/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:2999411/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:2991914/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:3032645/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:805153/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:802312/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:3218820/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:3284008/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:738238/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1138057/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:722881/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:2105107/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1523965/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1560083/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1737776/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1483707/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1435763/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1836833/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1844876/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:2907461/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1997349/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:1211760/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:22417/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:2501502/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:2429636/45‑1 (MQ=255)
caTAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:119816/45‑1 (MQ=255)
tAACCGTACAACCGTTTCATGCCATCCGCATCGGTTTCGCtat < 1:2696226/43‑1 (MQ=255)
aCCGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGcaaca < 1:1098662/69‑1 (MQ=255)
aCCGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGcaaca < 1:1676993/69‑1 (MQ=255)
aCCGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGcaaca < 1:3426780/69‑1 (MQ=255)
aCCGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGcaaca < 1:2291319/69‑1 (MQ=255)
aCCGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGcaaca < 1:2216129/69‑1 (MQ=255)
cGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACaaa < 1:2427322/69‑1 (MQ=255)
cGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACaaa < 1:2696213/69‑1 (MQ=255)
gTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACaaa < 1:279952/68‑1 (MQ=255)
tttCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAGAATCCCGGCAACAAAtt < 1:707603/69‑1 (MQ=255)
tttCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCATCAAAtt < 1:436456/69‑1 (MQ=255)
tttCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAAtt < 1:1378781/69‑1 (MQ=255)
tttCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAAtt < 1:628182/69‑1 (MQ=255)
tttCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAAtt < 1:303568/69‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCTGCAACAAATTCAc < 1:1947182/68‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAc < 1:657637/68‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAc < 1:65237/68‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAc < 1:1938008/68‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAc < 1:2174151/68‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAc < 1:889439/68‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAc < 1:3120392/68‑1 (MQ=255)
aCGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAc < 1:2890522/68‑1 (MQ=255)
|
AGGTGACCCGTTTTTTTTATTCTTACTTCAACACATAACCGTACAACCGTTTCACGCCATCCGCATCGGTTTCGCTATAAACACCTTGCAGCTCCGGCGAAAATCCCGGCAACAAATTCAC > minE/1993992‑1994112
|
| 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
