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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,142,011 |
T→C |
16.0% |
F152L (TTC→CTC) |
katE → |
hydroperoxidase HPII(III) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,142,011 | 0 | T | C | 16.0%
| 183.2
/ 27.8
| 75 | F152L (TTC→CTC) | katE | hydroperoxidase HPII(III) |
| Reads supporting (aligned to +/- strand): ref base T (33/30); new base C (9/3); total (42/33) |
| Fisher's exact test for biased strand distribution p-value = 2.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01 |
TGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGGGTGGTGCTGGCTC > minE/1141941‑1142081
|
tGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:2226744/71‑1 (MQ=255)
cACGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATCTCCTCTCAGATCCGAACa > 1:3344302/1‑70 (MQ=255)
aCGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACaaa < 1:3113133/71‑1 (MQ=255)
cGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:3663981/50‑1 (MQ=255)
cGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:1364146/50‑1 (MQ=255)
cGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:3880051/50‑1 (MQ=255)
cGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:615430/50‑1 (MQ=255)
cGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:2710121/50‑1 (MQ=255)
gTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:2248304/1‑70 (MQ=255)
gTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:1106455/1‑70 (MQ=255)
ttATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:4104017/47‑1 (MQ=255)
ttATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGAtt < 1:3910457/47‑1 (MQ=255)
ttATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTc < 1:3037436/49‑1 (MQ=255)
ttATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTc < 1:689182/49‑1 (MQ=255)
ttATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTc < 1:2169696/49‑1 (MQ=255)
aTTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCAcc > 1:3858612/1‑71 (MQ=255)
aTTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCAcc > 1:1281412/1‑71 (MQ=255)
aTTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCAcc > 1:2015859/1‑71 (MQ=255)
ttCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCAccc > 1:1696123/1‑70 (MQ=255)
ttCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCAccc > 1:230475/1‑70 (MQ=255)
ttCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCAcc > 1:1611650/1‑69 (MQ=255)
cAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAg < 1:3445696/70‑1 (MQ=255)
cAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGt < 1:2777581/71‑1 (MQ=255)
cAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGt < 1:1982637/71‑1 (MQ=255)
atatAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTg < 1:467282/71‑1 (MQ=255)
atatAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTg < 1:2313301/71‑1 (MQ=255)
atatAAAAGCTTAAGCGATATTACCAAAGCGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTg > 1:2096218/1‑71 (MQ=255)
atatAAAAGCTTAAGCGATATTACCAAAGCGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTg > 1:2109987/1‑71 (MQ=255)
tataAAAGCTTAAGCGATATTACCAAAGCGTATTTCCTCTCAGATCCGAACaa < 1:817155/53‑1 (MQ=255)
taAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACaaa < 1:1189049/52‑1 (MQ=255)
taAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACaaa < 1:749353/52‑1 (MQ=255)
taAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCa > 1:2811299/1‑56 (MQ=255)
taAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCa > 1:2791158/1‑56 (MQ=255)
taAAAGCTTAAGCGATATTACCAAAGCGGATCTcc > 1:2248934/1‑35 (MQ=255)
taAAAGCTTAAGCGATATTACCAAAGCGGATCTcc > 1:598112/1‑35 (MQ=255)
taAAAGCTTAAGCGATATTACCAAAGCGGATCTcc > 1:2602205/1‑35 (MQ=255)
aaaaGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACaaaa > 1:2226754/1‑52 (MQ=255)
aaaaGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACaaaa > 1:1951658/1‑52 (MQ=255)
aaaGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCa > 1:2785450/1‑38 (MQ=255)
aaGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACaaa < 1:3249084/49‑1 (MQ=255)
aaGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACaaa < 1:717213/49‑1 (MQ=255)
aaGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGtt > 1:1520677/1‑71 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:2772710/1‑49 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:2036370/1‑49 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:646954/1‑49 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:3030536/1‑49 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:2173918/1‑49 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:1621134/1‑49 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAAt > 1:146008/1‑49 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTtc < 1:442209/71‑1 (MQ=255)
gCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTtc < 1:1489613/71‑1 (MQ=255)
aaGCGATATTACCAAAGCGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTa > 1:260372/1‑71 (MQ=255)
aaGCGATATTACCAAAGCGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTa > 1:2545275/1‑71 (MQ=255)
tcGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTAcc < 1:3038394/70‑1 (MQ=255)
tcGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTAcc < 1:820546/70‑1 (MQ=255)
cGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTctct < 1:3260334/67‑1 (MQ=255)
cGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTctct < 1:3711430/67‑1 (MQ=255)
cGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTctct < 1:642482/67‑1 (MQ=255)
cGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTctct < 1:1954169/67‑1 (MQ=255)
cGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTctct < 1:3442808/67‑1 (MQ=255)
tatTACCAAAGCGGATTTCCTCTTAGATCCGAACAAAATCACCCCAGTAt > 1:1695673/1‑50 (MQ=255)
tatTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTAt > 1:278948/1‑50 (MQ=255)
tatTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTc < 1:813205/71‑1 (MQ=255)
tatTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTc < 1:1892853/71‑1 (MQ=255)
atTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGt < 1:331141/57‑1 (MQ=255)
atTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTc < 1:3904648/70‑1 (MQ=255)
aCCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCCCCCCGGttt > 1:3519018/1‑44 (MQ=255)
aCCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAggg > 1:3487546/1‑71 (MQ=255)
aCCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAggg > 1:391804/1‑71 (MQ=255)
aCCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAgg > 1:1142566/1‑70 (MQ=255)
aCCAAAGCGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAggg > 1:2385110/1‑71 (MQ=255)
ccAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAggg < 1:3948875/70‑1 (MQ=255)
ccAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAggg < 1:2004118/70‑1 (MQ=255)
ccAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAggg < 1:2883748/70‑1 (MQ=255)
aaGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGggtggt > 1:3191594/1‑71 (MQ=255)
aaGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGggtggt > 1:3236460/1‑71 (MQ=255)
aaGCGGATTTCCTCTCAGATCCGAACAAAATCACACCAGTATTTGTACGTTTCTCTACCGTTCAGggtggt > 1:4044851/1‑71 (MQ=255)
aGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGggtg > 1:2646017/1‑68 (MQ=255)
aGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGggtg > 1:3130134/1‑68 (MQ=255)
aGCGGATTTCCTCTCAGATCCGAACAAAATAACCCCAGTATTTGTACGTTTCTCTACCGTTCAGggtg > 1:3534319/1‑68 (MQ=255)
cGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGt < 1:2528939/47‑1 (MQ=255)
cGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGt < 1:1920325/47‑1 (MQ=255)
cGGATCTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGt < 1:1643349/47‑1 (MQ=255)
ttCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGGGTGGTGCTGGctc > 1:2937223/1‑71 (MQ=255)
ttCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGGGTGGTGCTGGctc > 1:1881744/1‑71 (MQ=255)
ttCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGGGTGGTGCTGGctc > 1:1782531/1‑71 (MQ=255)
ttCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGGGTGGTGCTGGctc > 1:3326630/1‑71 (MQ=255)
|
TGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTAAGCGATATTACCAAAGCGGATTTCCTCTCAGATCCGAACAAAATCACCCCAGTATTTGTACGTTTCTCTACCGTTCAGGGTGGTGCTGGCTC > minE/1141941‑1142081
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
