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 |
1,889,980 |
G→A |
24.4% |
V83V (GTC→GTT) |
gudX ← |
predicted glucarate dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,889,980 | 0 | G | A | 24.4%
| 80.8
/ 19.7
| 65 | V83V (GTC→GTT) | gudX | predicted glucarate dehydratase |
| Reads supporting (aligned to +/- strand): ref base G (30/19); new base A (11/5); total (41/24) |
| Fisher's exact test for biased strand distribution p-value = 7.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAAAGGTCCAGGCACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAACCATCGGAATAGCATCGACAAGC > minE/1889913‑1890040
|
cAAAGGTCCAGGCACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTgg > 1:3194024/1‑68 (MQ=255)
ggTCCAGGCACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCAc > 1:2693080/1‑69 (MQ=255)
ggTCCAGGCACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCAc > 1:1845274/1‑69 (MQ=255)
ggTCCAGGCACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCAc > 1:1829129/1‑69 (MQ=255)
ggTCCAGGCACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCAc > 1:1705266/1‑69 (MQ=255)
cACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCa > 1:3048498/1‑69 (MQ=255)
ccTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAg > 1:1298162/1‑68 (MQ=255)
ccTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGt > 1:121495/1‑69 (MQ=255)
ccTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGt > 1:2620724/1‑69 (MQ=255)
ccTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGt > 1:517931/1‑69 (MQ=255)
ccTTTACCGAAGGGATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGt > 1:2954271/1‑69 (MQ=255)
cTTTGCCGAAGGTATCAAAATCGGCTGCCTGATTACCTTTATGCACCTGCTGAACCACTTTATTCAggc < 1:2894705/69‑3 (MQ=255)
cTTTGCCGAAGGTATCAAAATCGGCTGCCTGATTACCTTTATGCACCTGCTGAACCACTTTATTCAggc < 1:2109756/69‑3 (MQ=255)
cTTTGCCGAAGGTATCAAAATCGGCTGCCTGATTACCTTTATGCACCTGCTGAACCACTTTATTCAggc < 1:2047569/69‑3 (MQ=255)
cTTTGCCGAAGGTATCAAAATCGGCTGCCTGATTACCTTTATGCACCTGCTGAACCACTTTATTCAggc < 1:1720740/69‑3 (MQ=255)
cTTTGCCGAAGGTATCAAAATCGGCTGCCTGATTACCTTTATGCACCTGCTGAACCACTTTATTCAggc < 1:865937/69‑3 (MQ=255)
tttACCGAAGGTATCAAAATTGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:2102713/1‑69 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTgg > 1:3019990/1‑52 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGAcc > 1:3023961/1‑55 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:2766431/1‑69 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:329358/1‑69 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:2663852/1‑69 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:2975036/1‑69 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:2433386/1‑69 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:18946/1‑69 (MQ=255)
tttACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTcg > 1:3288732/1‑69 (MQ=255)
tCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:327141/1‑69 (MQ=255)
tCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:2142947/1‑69 (MQ=255)
tCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:328387/1‑69 (MQ=255)
tCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:1352474/1‑69 (MQ=255)
tCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:1680222/1‑69 (MQ=255)
aaaaTCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:2351237/1‑67 (MQ=255)
aaaaTCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:1322797/1‑67 (MQ=255)
aaaaTCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:2573658/1‑67 (MQ=255)
aaaaTCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:122658/1‑67 (MQ=255)
aaaaTCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:1537825/1‑67 (MQ=255)
aaaaTCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTgg > 1:2762513/1‑67 (MQ=255)
tCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:321450/69‑1 (MQ=255)
tCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:47070/69‑1 (MQ=255)
tCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:374034/69‑1 (MQ=255)
tCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:659062/69‑1 (MQ=255)
tCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:1876174/69‑1 (MQ=255)
tCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:783945/69‑1 (MQ=255)
tCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:1178957/69‑1 (MQ=255)
cggcggCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGa < 1:2572450/68‑1 (MQ=255)
cggcCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAAcc < 1:2166006/68‑1 (MQ=255)
cggcCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAAcc < 1:3032271/68‑1 (MQ=255)
cggcCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAAcc < 1:2129564/68‑1 (MQ=255)
cggcCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAAcc < 1:1874592/68‑1 (MQ=255)
cggcCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAAcc < 1:331309/68‑1 (MQ=255)
ggcCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAAcc < 1:3358900/67‑1 (MQ=255)
cTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGCCCCAGAACCATCgg < 1:1305043/69‑1 (MQ=255)
tttATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAACCATCGGAATAGCATc < 1:279827/69‑1 (MQ=255)
gCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAAcc < 1:684906/50‑1 (MQ=255)
cACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAACCATCGGAATAGCATCGACaa < 1:1229372/68‑1 (MQ=255)
cACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAACCATCGGAATAGCATCGACaa < 1:1107622/68‑1 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTg > 1:1755263/1‑38 (MQ=38)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:377226/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:902915/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:356606/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:3346508/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:3248914/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:2810242/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:2133437/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:17784/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:1253292/1‑68 (MQ=255)
aCCTGCTGAACCACTTTATTCAGGCGCGCAACTTCCTGGCCCAGCACCATCGGAATAGCCTTGACCAgt > 1:113033/1‑68 (MQ=255)
|
CAAAGGTCCAGGCACCTTTACCGAAGGTATCAAAATCGGCGGCCTGATTACCTTTATGCACCTGCTGGACCACTTTATTCAGTCGCGCAACTTCCTGGCCCAGAACCATCGGAATAGCATCGACAAGC > minE/1889913‑1890040
|
| 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
