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 |
2,291,520 |
C→T |
31.0% |
D744D (GAC→GAT) |
ppc → |
phosphoenolpyruvate carboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,291,520 | 0 | C | T | 31.0%
| 69.0
/ 34.0
| 74 | D744D (GAC→GAT) | ppc | phosphoenolpyruvate carboxylase |
| Reads supporting (aligned to +/- strand): ref base C (23/28); new base T (12/11); total (35/39) |
| Fisher's exact test for biased strand distribution p-value = 6.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 |
TGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCATTCTTC > minE/2291465‑2291568
|
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:3408791/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:2628736/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:2603959/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:25276/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:1057080/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:2862858/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:1715618/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:49278/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:1098745/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:784504/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagcg > 1:1348284/1‑69 (MQ=255)
tGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGATGGCAAACAgagc > 1:806642/1‑68 (MQ=255)
ccTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:2596737/69‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:1074251/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:770551/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:231008/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:206225/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:2858849/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:2892597/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:1867232/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:569604/68‑1 (MQ=255)
tGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:1523895/68‑1 (MQ=255)
gTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:1811363/69‑1 (MQ=255)
gTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:2075945/69‑1 (MQ=255)
gTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:1163153/69‑1 (MQ=255)
gTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:2476481/69‑1 (MQ=255)
gTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:265337/69‑1 (MQ=255)
accgcgcTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:2708880/4‑69 (MQ=255)
aCGGCGCTTCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:434854/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCTAACAGAGCGAGCTGGAGGCTATGTGCCGCGAt > 1:735283/1‑63 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAATCAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGcc > 1:2908785/1‑68 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTg > 1:2088038/1‑45 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:2672571/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa > 1:415632/1‑52 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:844097/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:1241865/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:2057705/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa > 1:1622799/1‑52 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:180450/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:1833797/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTa < 1:1863598/52‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGcc > 1:943448/1‑68 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGcc > 1:586173/1‑68 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGcc > 1:54044/1‑68 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGcc > 1:1799668/1‑68 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:261250/67‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:3063415/67‑1 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:2803485/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:1126382/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:1383582/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:2416953/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:2745789/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:548278/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:2014625/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:297581/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:3053410/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:2025793/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:327579/1‑69 (MQ=255)
aCGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCa > 1:2835052/1‑69 (MQ=255)
cGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:843124/60‑1 (MQ=255)
gcgcTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGc < 1:369294/64‑1 (MQ=255)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:3095189/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:2018474/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:2562183/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:1501202/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:1539627/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:674986/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:556001/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:540665/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:528573/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:1629367/47‑1 (MQ=38)
aaGTGGTCGAAGATGGCAAACAGAGCGAGCTGGAAGCCATGTGCcgc < 1:2810648/47‑1 (MQ=38)
aaGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCcgcg < 1:818118/48‑1 (MQ=255)
tCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCAttcttc > 1:501306/1‑56 (MQ=255)
|
TGATGCTCCCCGCCTGGCTGGGTGCAGGTACGGCGCTGCAAAAAGTGGTCGAAGACGGCAAACAGAGCGAGCTGGAGGCTATGTGCCGCGATTGGCCATTCTTC > minE/2291465‑2291568
|
| 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
