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 |
2,811,009 |
C→T |
31.8% |
A579A (GCG→GCA) |
uvrA ← |
ATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,811,009 | 0 | C | T | 31.8%
| 39.3
/ 19.8
| 47 | A579A (GCG→GCA) | uvrA | ATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC |
| Reads supporting (aligned to +/- strand): ref base C (5/27); new base T (8/7); total (13/34) |
| Fisher's exact test for biased strand distribution p-value = 1.31e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCTTGCGTTTGCCGCTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATCAC > minE/2810953‑2811077
|
aTCTTGCGTTTGCCGCTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCgg < 1:3354421/68‑1 (MQ=255)
cTTGCGTTTGCCGCTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGAc > 1:1936213/1‑68 (MQ=255)
tttGCCGCTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGc < 1:2576438/69‑1 (MQ=255)
ccGCTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGAc < 1:3327521/68‑1 (MQ=255)
gCTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCAc < 1:1092708/69‑1 (MQ=255)
cTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCgg < 1:2504129/53‑1 (MQ=255)
tCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACtt < 1:3287930/69‑1 (MQ=255)
tCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACtt < 1:2318147/69‑1 (MQ=255)
cATGTACTGTCCGGTCAACGACTCCGGCACCGGCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTc < 1:6413/69‑1 (MQ=255)
cATGTACTGTCCGGTCAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTc < 1:113150/69‑1 (MQ=255)
cATGTACTGTCCGGTCAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTc < 1:2548668/69‑1 (MQ=255)
cATGTACTGTCCGGTCAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTc < 1:1179268/69‑1 (MQ=255)
cATGTACTGTCCGGTCAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTc < 1:2266888/69‑1 (MQ=255)
cATGTACTGTCCGGTCAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTc < 1:2265202/69‑1 (MQ=255)
cATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACtt < 1:283982/68‑1 (MQ=255)
ccGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGc < 1:3041261/50‑1 (MQ=255)
cgttCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:1213546/64‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:2680108/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:1175498/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:1911007/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:1579193/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:445040/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:371973/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:1242613/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:3176029/67‑1 (MQ=255)
cGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTg < 1:3408890/67‑1 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAacac > 1:1237747/1‑68 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAACAcc > 1:1775243/1‑69 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAACAcc > 1:833300/1‑69 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAACAcc > 1:2518271/1‑69 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAACAcc > 1:2170489/1‑69 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAACAcc > 1:610811/1‑69 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAACAcc > 1:1830465/1‑69 (MQ=255)
cAACGACTCCGGCACCGCCATAATTGCTCCCAGTGGACCTTCCGCGACCACTTCACCGCCGTGAACAcc > 1:2855219/1‑69 (MQ=255)
cAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCAc < 1:1054167/51‑1 (MQ=255)
gACTCCGGCACCGCCATAATTGCTTCCAGTGGACCTTCCGCGACCACTTc < 1:626308/50‑1 (MQ=255)
gACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTgcg > 1:2133438/1‑69 (MQ=255)
gACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTgcg > 1:1224031/1‑69 (MQ=255)
gACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTgcg > 1:1129511/1‑69 (MQ=255)
gACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTgcg > 1:1055770/1‑69 (MQ=255)
cACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGcc < 1:2824844/69‑1 (MQ=255)
cACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGcc < 1:2561721/69‑1 (MQ=255)
cACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGcc < 1:3350900/69‑1 (MQ=255)
aTCGCTTCCAGCGGACCTTCTGCGACCACTTCAccgc < 1:978447/37‑1 (MQ=255)
aTCGCTTCCAGCGGACCTTCTGCGACCACTTCAccgc < 1:2412864/37‑1 (MQ=255)
aTCGCTTCCAGCGGACCTTCTGCGACCACTTCAccgc < 1:2171759/37‑1 (MQ=255)
aTCGCTTCCAGCGGACCTTCTGCGACCACTTCAccgc < 1:1066778/37‑1 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:3249791/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:2775427/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:3381611/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:359974/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:2040968/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:598942/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:1848275/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:1645318/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATcac > 1:1335812/1‑69 (MQ=255)
cGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATca > 1:1178604/1‑68 (MQ=255)
|
ATCTTGCGTTTGCCGCTCATGTACTGCCCGGTCAACGACTCCGGCACCGCCATAATCGCTTCCAGCGGACCTTCTGCGACCACTTCACCGCCGTGAACACCTGCGCCCGGGCCAATGTCGATCAC > minE/2810953‑2811077
|
| 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
