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 |
271,637 |
C→T |
31.6% |
P158P (CCG→CCA) |
yajL ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 271,637 | 0 | C | T | 31.6%
| 33.4
/ 17.1
| 41 | P158P (CCG→CCA) | yajL | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (11/17); new base T (9/4); total (20/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACTTCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGCCAT > minE/271569‑271697
|
aCTTCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTAccc > 1:2105923/1‑69 (MQ=255)
ttCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCgg > 1:2279723/1‑69 (MQ=255)
ttCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCgg > 1:1490731/1‑69 (MQ=255)
ttCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCgg > 1:3099124/1‑69 (MQ=255)
ttCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCgg > 1:274009/1‑69 (MQ=255)
ttCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCgg > 1:187890/1‑69 (MQ=255)
cATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGc > 1:2283538/1‑68 (MQ=255)
ggCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCctg > 1:86976/1‑69 (MQ=255)
gCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCa < 1:1602088/69‑1 (MQ=255)
gCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCa < 1:3067980/69‑1 (MQ=255)
gCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCa < 1:2965995/69‑1 (MQ=255)
aaccaacAGGTCTATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAAttt < 1:995366/69‑1 (MQ=255)
aaccaacAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAAttt < 1:1938537/69‑1 (MQ=255)
aaccaacAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAAttt < 1:1406772/69‑1 (MQ=255)
aaccaacAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAAttt < 1:2611776/69‑1 (MQ=255)
ggTCGATAATTTTCAGACCATAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTg < 1:307461/69‑1 (MQ=255)
ggTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTg < 1:839483/69‑1 (MQ=255)
ggTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTg < 1:2113016/69‑1 (MQ=255)
ggTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTg < 1:2729762/69‑1 (MQ=255)
ggTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTg < 1:2395171/69‑1 (MQ=255)
ggTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTg < 1:2675016/69‑1 (MQ=255)
tttCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTg < 1:2180007/59‑1 (MQ=255)
taCCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAAttt < 1:1266995/45‑1 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAAtt > 1:2720001/1‑42 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:1471011/1‑69 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:1975870/1‑69 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:2892804/1‑69 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:1790325/1‑69 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:1752506/1‑69 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:3137229/1‑69 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:3145926/1‑69 (MQ=255)
cAAAGTCGATAGCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCt > 1:3290581/1‑69 (MQ=255)
tAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGc < 1:1547914/68‑1 (MQ=255)
tAGCTGTACCCGGCCCCTGGCTGATCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGc < 1:258735/68‑1 (MQ=255)
gCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCTGCCAt < 1:1789716/69‑1 (MQ=255)
gCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCTGCCAt < 1:788678/69‑1 (MQ=255)
gCTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCTGCCAt < 1:711320/69‑1 (MQ=255)
gCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGCCAt > 1:1929537/1‑69 (MQ=255)
gCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGCCAt > 1:28467/1‑69 (MQ=255)
gCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGCCAt > 1:2230662/1‑69 (MQ=255)
gCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGCCAt > 1:1196131/1‑69 (MQ=255)
cTGTACCTGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCTGCCAt < 1:2627596/68‑1 (MQ=255)
|
ACTTCATGGGCTTTTTCACGCCCAACCAACAGGTCGATAATTTTCAGACCAAAGTCGATAGCTGTACCCGGCCCCTGGCTGGTCAGCAATTTTACCCGTGCATCCCAGACGACGCGCTTGTCCAGCCAT > minE/271569‑271697
|
| 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
