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 |
|
A6 F28 I2 R2
|
64 |
60.0 |
3197630 |
92.7% |
2964203 |
60.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
1,093,658 |
T→C |
T907A (ACA→GCA) |
ydiJ ← |
predicted FAD‑linked oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,093,658 | 0 | T | C | 96.5%
| 299.3
/ 0.5
| 87 | T907A (ACA→GCA) | ydiJ | predicted FAD‑linked oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (3/0); new base C (26/58); total (29/58) |
| Fisher's exact test for biased strand distribution p-value = 3.45e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
TGGCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCA > minE/1093590‑1093725
|
tGGCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAg > 1:182367/1‑71 (MQ=255)
tGGCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAg > 1:1783812/1‑71 (MQ=255)
tGGCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTAACCTCTGACTGCAg > 1:136198/1‑71 (MQ=255)
ggCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGc > 1:1591525/1‑71 (MQ=255)
ggCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGc > 1:1466630/1‑71 (MQ=255)
gcgcACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGcc < 1:1150731/71‑1 (MQ=255)
gcgcACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGcc < 1:2703159/71‑1 (MQ=255)
gcgcACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGcc < 1:2105639/71‑1 (MQ=255)
gcACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCAc < 1:2698976/71‑1 (MQ=255)
aCCCGGCAAGGCTGTAACTTCGGTACAGTGACCAAAGAAATACCATGTTTCACCGCTGACTGCAGCCACTg < 1:991656/71‑1 (MQ=255)
cccGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTgg < 1:3103831/71‑1 (MQ=255)
ccGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGc > 1:1568408/1‑71 (MQ=255)
ccGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGc > 1:1628573/1‑71 (MQ=255)
cGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCt < 1:2066898/71‑1 (MQ=255)
cGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCt < 1:488000/71‑1 (MQ=255)
ggCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCtg > 1:988358/1‑71 (MQ=255)
ggCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCtg > 1:1481117/1‑71 (MQ=255)
ggCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCtg > 1:2564117/1‑71 (MQ=255)
gCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCtgt < 1:286102/71‑1 (MQ=255)
aaGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGa < 1:3044913/71‑1 (MQ=255)
ggTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCaa < 1:939279/71‑1 (MQ=255)
gTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAg < 1:1456616/71‑1 (MQ=255)
gTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAg < 1:2498688/71‑1 (MQ=255)
gTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAg < 1:2937534/71‑1 (MQ=255)
tAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCt < 1:1853493/60‑1 (MQ=255)
cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGc < 1:2245474/46‑1 (MQ=255)
cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGc < 1:244599/46‑1 (MQ=255)
cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGc < 1:144112/46‑1 (MQ=255)
cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCtt > 1:97096/1‑71 (MQ=255)
cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCt < 1:1270677/70‑1 (MQ=255)
ggTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCtt < 1:970128/70‑1 (MQ=255)
gTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCtt < 1:217078/69‑1 (MQ=255)
aCAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTgc > 1:2029921/1‑69 (MQ=255)
cAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCt < 1:2165286/49‑1 (MQ=255)
cAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTgccag < 1:806010/71‑1 (MQ=255)
cAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTgccag < 1:771433/71‑1 (MQ=255)
gTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc > 1:2292895/1‑70 (MQ=255)
aCCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcatt > 1:2619076/1‑71 (MQ=255)
aCCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcatt > 1:1522010/1‑71 (MQ=255)
cAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTgcg < 1:334708/56‑1 (MQ=255)
aaaGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCTAGCcattcat < 1:2333060/71‑1 (MQ=255)
aaaGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattcat < 1:422657/71‑1 (MQ=255)
aaaGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattcat < 1:1377632/71‑1 (MQ=255)
aaGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattcatt > 1:1564606/1‑71 (MQ=255)
aaGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattcat < 1:1823719/70‑1 (MQ=255)
gAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcatt < 1:1456727/65‑1 (MQ=255)
gAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcatt < 1:2095769/65‑1 (MQ=255)
gAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcatt < 1:497029/65‑1 (MQ=255)
aTGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCattcattc < 1:352443/62‑1 (MQ=255)
aTGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCattcattc < 1:1905653/62‑1 (MQ=255)
aTGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCattcattc < 1:2507543/62‑1 (MQ=255)
tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc > 1:1517794/1‑52 (MQ=255)
tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc > 1:854721/1‑52 (MQ=255)
tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc > 1:185974/1‑52 (MQ=255)
tGATTCACCGCTGACTGCAGCCACTGGCTGTGACt > 1:258734/1‑35 (MQ=255)
tGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGa < 1:1516698/71‑1 (MQ=255)
tGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGa < 1:2117801/71‑1 (MQ=255)
gATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattca < 1:1878989/57‑1 (MQ=255)
gATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattca < 1:2772101/57‑1 (MQ=255)
aTTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattc < 1:3003694/55‑1 (MQ=255)
aTTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattc < 1:3192884/55‑1 (MQ=255)
aTTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattc < 1:2662503/55‑1 (MQ=255)
aTTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattc < 1:1991843/55‑1 (MQ=255)
ttCACCGCTGACTGCAGCCTCTGGCTGTGACTCAAg > 1:2351158/1‑36 (MQ=37)
ttCACCGCTGACTGCAGCCACTGGCTGTGACTCAAg > 1:886005/1‑36 (MQ=255)
ttCACCGCTGACTGCAGCCACTGGCTGTGACTCAAg > 1:1892006/1‑36 (MQ=255)
ttCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTgccggc < 1:848671/49‑1 (MQ=255)
ttCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc < 1:973571/49‑1 (MQ=255)
ttCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc < 1:1055923/49‑1 (MQ=255)
aCCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa < 1:1818549/70‑1 (MQ=255)
aCCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa < 1:2898612/70‑1 (MQ=255)
aCCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa > 1:249723/1‑70 (MQ=255)
aCCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa < 1:1446516/70‑1 (MQ=255)
ccGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCtt < 1:1405713/39‑1 (MQ=255)
ccGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCtt < 1:1456601/39‑1 (MQ=255)
ccGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGc > 1:646386/1‑56 (MQ=255)
ccGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGc > 1:1304889/1‑56 (MQ=255)
ccGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGc > 1:1234388/1‑56 (MQ=255)
ccGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGc > 1:2524926/1‑56 (MQ=255)
ccGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTaaa < 1:2340064/71‑1 (MQ=255)
cGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa < 1:1933032/68‑1 (MQ=255)
cGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa < 1:2059478/68‑1 (MQ=255)
cGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa < 1:1890404/68‑1 (MQ=255)
cGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAAc > 1:705980/1‑71 (MQ=255)
cGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAAc < 1:322215/71‑1 (MQ=255)
cTGCAGCCTCTGGCTGTGACTCAAGTGCGCTTGCCAGCcattca < 1:559358/44‑1 (MQ=38)
cTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCa < 1:1851526/71‑1 (MQ=255)
|
TGGCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCA > minE/1093590‑1093725
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
