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 |
441,066 |
A→G |
70.7% |
I167I (ATT→ATC) |
potE ← |
putrescine/proton symporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 441,066 | 0 | A | G | 70.7%
| 48.5
/ 20.0
| 51 | I167I (ATT→ATC) | potE | putrescine/proton symporter |
| Reads supporting (aligned to +/- strand): ref base A (8/7); new base G (28/8); total (36/15) |
| Fisher's exact test for biased strand distribution p-value = 1.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.37e-01 |
ACGGTGCATGATGCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACCGACGACCGGAATAATGACCCCCCACACGGTAATGCTACT > minE/441005‑441119
|
aCGGTGCATGATGCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATg > 1:1999833/1‑68 (MQ=255)
aCGGTGCATGATGCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATg > 1:2772264/1‑68 (MQ=255)
aCGGTGCATGATGCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATg > 1:162058/1‑68 (MQ=255)
aCGGTGCATGATGCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATg > 1:2827632/1‑68 (MQ=255)
aCGGTGCATGATGCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATg > 1:3006754/1‑68 (MQ=255)
atgCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACcgac > 1:7307/1‑69 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:535071/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:2478896/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:2498096/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:2754060/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:1846200/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:1123511/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:1192740/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:3166485/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:3237410/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:3340269/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:3393584/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:1252801/1‑60 (MQ=255)
aTTCCAGGAATCAACGTAAAGTGTAGGGCTAAACCAGAACCAGCCGATAATGCACAGGcct > 1:2800480/1‑60 (MQ=255)
ccAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACCGACGACCGGaat < 1:1453806/69‑1 (MQ=255)
ccAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACCGACGACCGGaat > 1:3101177/1‑69 (MQ=255)
ccAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACCGACGACCGGaat < 1:1237639/69‑1 (MQ=255)
ccAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACCGACGACCGGaat < 1:1969284/69‑1 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATg > 1:606375/1‑48 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:3001096/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:3209070/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:2779645/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:2264645/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:1069910/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:1499974/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:1454413/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:1380532/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:1940286/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:196640/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaata > 1:1097818/1‑69 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaat > 1:942764/1‑68 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaat > 1:2189682/1‑68 (MQ=255)
cAGGAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGaa > 1:574001/1‑67 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:518655/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:869728/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:49383/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:1340280/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:1375092/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:1399934/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:902898/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:1487890/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:2895768/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:1559692/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:2185519/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:175374/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:1847588/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:2735355/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:2458604/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataat > 1:2470965/1‑44 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgataa > 1:3230618/1‑43 (MQ=255)
gAATCAACGTAAAGTGTCGGGCTAAACCAGAACCAGCCgat > 1:3069794/1‑41 (MQ=255)
aaCGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACCGACGACCGGAATAATGAccc > 1:3325297/1‑68 (MQ=255)
cGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGATCGACGACCGGAATAATGAccccc < 1:1342493/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:2153518/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:2222550/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:1044461/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:1878285/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:2626151/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:1771044/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:3157311/68‑1 (MQ=255)
tgTCGGGCTAAACCAGAACCAGCCGATAATGCACAGGCCTACCACCGGAATAATGACCCCCCACACGGt < 1:2042939/68‑1 (MQ=255)
aaaCCAGAACCAGCCAATAATGCACAGACCGACGACCGGAATAATGACCCCCCACACGGTAATGCTACt < 1:2475284/69‑1 (MQ=255)
aaaCCAGAACCAGCCAATAATGCACAGACCGACGACCGGAATAATGACCCCCCACACGGTAATGCTACt < 1:1295316/69‑1 (MQ=255)
aaaCCAGAACCAGCCAATAATGCACAGACCGACGACCGGAATAATGACCCCCCACACGGTAATGCTACt < 1:1563941/69‑1 (MQ=255)
|
ACGGTGCATGATGCGGATTCCAGGAATCAACGTACAGCGTCGGGCTAAACCAGAACCAGCCAATAATGCACAGACCGACGACCGGAATAATGACCCCCCACACGGTAATGCTACT > minE/441005‑441119
|
| 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
