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 |
1,576,174 |
G→C |
68.6% |
A290A (GCC→GCG) |
xapB ← |
xanthosine transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,576,174 | 0 | G | C | 68.6%
| 99.5
/ 60.3
| 86 | A290A (GCC→GCG) | xapB | xanthosine transporter |
| Reads supporting (aligned to +/- strand): ref base G (18/9); new base C (37/22); total (55/31) |
| Fisher's exact test for biased strand distribution p-value = 8.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAA > minE/1576110‑1576227
|
gcagcaAAATAAATACGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:936849/1‑68 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:2103807/69‑1 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:1258314/69‑1 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:90322/69‑1 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:53191/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:1561827/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:1341646/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:362461/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:1398417/69‑1 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:2193407/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:1572764/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:3182486/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:3247490/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:760793/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:339684/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:291942/1‑62 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:357314/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1800702/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1863293/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:186537/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1596031/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1515360/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:3171839/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:2580671/66‑1 (MQ=255)
gACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:2309410/47‑1 (MQ=255)
gCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGc > 1:1276088/1‑68 (MQ=255)
gCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGCTTTTAATGc > 1:3136816/1‑68 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACacatc > 1:996730/1‑44 (MQ=37)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:1694877/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:3321130/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:45313/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:2092086/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:460814/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:471413/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:559691/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:766413/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:1369850/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:836047/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:3048902/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:293713/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:901355/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:1123922/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCAACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:2616232/1‑64 (MQ=255)
ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg > 1:971656/1‑69 (MQ=255)
ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg > 1:447414/1‑69 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1292676/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1417020/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1474478/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:2457768/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:307447/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:2436243/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:2410078/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:3425575/69‑1 (MQ=255)
ccAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1293577/67‑1 (MQ=255)
cAACGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:2079986/44‑1 (MQ=38)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCGAATCGCTTTAAAAAGa > 1:1796625/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:1130899/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:2576754/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:1642719/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:2745226/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:299675/1‑69 (MQ=255)
cAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1622974/44‑1 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:585433/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2699936/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2798880/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2530902/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1313507/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:83008/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:807654/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:793250/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:709589/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:601121/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1979483/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1558652/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:533103/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1562002/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:483524/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:3014563/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:3074580/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:178617/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:3177114/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2254404/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1878450/1‑69 (MQ=255)
aaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:2464888/42‑1 (MQ=255)
aaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1164526/42‑1 (MQ=255)
gCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:164067/57‑1 (MQ=255)
|
GCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAA > minE/1576110‑1576227
|
| 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
