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 |
906,094 |
A→C |
37.5% |
I41L (ATC→CTC) |
ycjR → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 906,094 | 0 | A | C | 37.5%
| 22.2
/ 40.4
| 48 | I41L (ATC→CTC) | ycjR | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (19/11); new base C (10/8); total (29/19) |
| Fisher's exact test for biased strand distribution p-value = 7.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GATGGTTTTGAGATTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTGGC > minE/906055‑906156
|
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGCAGCAATCAAAGa < 1:3426852/68‑1 (MQ=255)
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGCAGCAATCAAAGa < 1:350953/68‑1 (MQ=255)
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGCAGCAATCAAAGa < 1:441063/68‑1 (MQ=255)
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGCAGCAATCAAAGa < 1:2381443/68‑1 (MQ=255)
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGCAGCAATCAAAGa < 1:255387/68‑1 (MQ=255)
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGCAGCAATCAAAGa < 1:149922/68‑1 (MQ=255)
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGCAGCAATCAAAGa < 1:2984994/68‑1 (MQ=255)
gATGGTTTTGAGATCGACGGCAAACTGCTGGTCAACAATCTCGAAGAAGTCAAAGAAGCAATCAAAGa < 1:1985041/68‑1 (MQ=255)
agaTTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTa < 1:1920486/68‑1 (MQ=255)
agaTTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTa < 1:2756098/68‑1 (MQ=255)
agaTTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTa < 1:3051267/68‑1 (MQ=255)
agaTTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTa < 1:1435484/68‑1 (MQ=255)
agaTTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTa < 1:1041213/68‑1 (MQ=255)
agaTTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTa < 1:3324551/68‑1 (MQ=255)
gACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTg > 1:3113868/1‑69 (MQ=255)
gACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTg > 1:3208861/1‑69 (MQ=255)
gACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTg > 1:32312/1‑69 (MQ=255)
gACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTg > 1:2233325/1‑69 (MQ=255)
gACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTg > 1:3335790/1‑69 (MQ=255)
gACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTg > 1:1685191/1‑69 (MQ=255)
gACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTg > 1:758333/1‑69 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt < 1:1862229/59‑1 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt < 1:1841911/59‑1 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt > 1:1825397/1‑59 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt > 1:1164016/1‑59 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt > 1:614832/1‑59 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt < 1:1182187/59‑1 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt > 1:1305755/1‑59 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt < 1:3200988/59‑1 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGt < 1:3123958/59‑1 (MQ=255)
ctgctgGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGcc > 1:269636/1‑69 (MQ=255)
tAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTg > 1:2077967/1‑68 (MQ=255)
tAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTg > 1:154501/1‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:729141/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:633348/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:3410224/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:933956/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:2418660/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:1602340/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:1562618/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:1474390/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:13578/2‑68 (MQ=255)
caacaatCTCGAAGAAGTCAAAGCAGCAATCAAAGAAACCGGTTTACCGGTGACCACCGCCTgtggtg > 1:1332247/2‑68 (MQ=255)
aacaacATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTGGc > 1:2264096/1‑69 (MQ=255)
aacaacATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTGGc > 1:1728899/1‑69 (MQ=255)
aacaacATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTGGc > 1:412109/1‑69 (MQ=255)
aacaacATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTGGc > 1:438526/1‑69 (MQ=255)
aacaacATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTGGc > 1:1725614/1‑69 (MQ=255)
|
GATGGTTTTGAGATTGACGGCAAACTGCTGGTTAACAACATCGAAGAAGTCAAAGCGGCGATCAAAGAAACCGGTTTACCGGTGACCACCGCCTGCGGTGGC > minE/906055‑906156
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
