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 |
1,900,206 |
A→G |
59.3% |
F945F (TTT→TTC) |
recB ← |
exonuclease V (RecBCD complex), beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,900,206 | 0 | A | G | 59.3%
| 20.6
/ 35.6
| 54 | F945F (TTT→TTC) | recB | exonuclease V (RecBCD complex), beta subunit |
| Reads supporting (aligned to +/- strand): ref base A (13/9); new base G (16/16); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 5.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.03e-01 |
CCGGCTGGGTAAAATCCAGGTCTTCAAACAAACTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGTTCTTCAACGACGCTGGCAACGCCTGCAGCATCGACATCCAGCC > minE/1900139‑1900273
|
ccGGCTGGGTAAAATCCAGGTCTTCAAACAAACTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGa < 1:268738/68‑1 (MQ=255)
gCTGGGTAAAATCCAGGTCTTCAAACAAACTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACt < 1:2883577/69‑1 (MQ=255)
gCTGGGTAAAATCCAGGTCTTCAAACAAACTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACt < 1:46602/69‑1 (MQ=255)
gCTGGGTAAAATCCAGGTCTTCAAACAAACTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACt < 1:2740018/69‑1 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt > 1:1380708/1‑59 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt < 1:1951727/59‑1 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt > 1:1583831/1‑59 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt > 1:1357945/1‑59 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt > 1:2543667/1‑59 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt > 1:1241833/1‑59 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt < 1:1216400/59‑1 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGtt > 1:922981/1‑59 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGtt > 1:1426641/1‑69 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGtt > 1:1437660/1‑69 (MQ=255)
caaacaaaCTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGtt > 1:2815900/1‑69 (MQ=255)
caaacaaaCTGTCCAAGAACGTCCCCGGTGACGCACCGCTCGGAAACTGATGTTGTGtt > 1:3118281/1‑59 (MQ=255)
aacaaacTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGttc < 1:109815/68‑1 (MQ=255)
gtgCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGTTCTTCAacgac < 1:3152798/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:2505822/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:1054920/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:2956150/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:2973542/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:3262107/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:3327490/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:568475/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:58163/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:672336/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:769947/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:2073857/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:1536181/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:1606859/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:1633341/69‑1 (MQ=255)
cAAGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGATGTTAACGTCGGTTCTTCAACGACGCt < 1:43738/69‑1 (MQ=255)
aaGAATGTCCCTGGTGACGCACCGCGCGGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCt < 1:2346619/68‑1 (MQ=255)
aCGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGTTCTTCAACGACGCTGGCAACGCCTgcagca > 1:2533001/1‑68 (MQ=255)
aCGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGTTCTTCAACGACGCTGGCAACGCCTgcagca > 1:1508425/1‑68 (MQ=255)
aCGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGTTCTTCAACGACGCTGGCAACGCCTgcagca > 1:2184604/1‑68 (MQ=255)
cgGGAACTGATGCGGTGTTACCGTCGGTTCTTCAACGACGCTGACCACGCCTgcg > 1:1285162/1‑54 (MQ=25)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAacgac > 1:2559048/1‑39 (MQ=38)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGCCCACGCCTGCGGCATCAACATCCAg > 1:2922366/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCa > 1:169100/1‑68 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCa > 1:1105764/1‑68 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCa > 1:1255183/1‑68 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:2501579/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:2048784/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:3422906/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:2744358/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:136846/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:2697957/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:598163/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:2584546/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:24173/1‑69 (MQ=255)
cgGGAACTGATGCGGTGTTAACGTCGGTTCTTCAACGACGCTGACCACGCCTGCGGCATCAACATCCAg > 1:1035570/1‑69 (MQ=255)
gAAACTGATGTGGTGTTAACGTCGGTTCTTCAACGACGCTGGCAACGCCTGCAGCATCGACATCCAGcc < 1:1649522/69‑1 (MQ=255)
gAAACTGATGTGGTGTTAACGTCGGTTCTTCAACGACGCTGGCAACGCCTGCAGCATCGACATCCAGcc < 1:2202863/69‑1 (MQ=255)
|
CCGGCTGGGTAAAATCCAGGTCTTCAAACAAACTGTGCAAGAACGTCCCCGGTGACGCACCGCGCGGAAACTGATGTGGTGTTAACGTCGGTTCTTCAACGACGCTGGCAACGCCTGCAGCATCGACATCCAGCC > minE/1900139‑1900273
|
| 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
