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 |
285,523 |
T→C |
56.2% |
F126F (TTT→TTC) |
clpP → |
proteolytic subunit of ClpA‑ClpP and ClpX‑ClpP ATP‑dependent serine proteases |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 285,523 | 0 | T | C | 56.2%
| 19.1
/ 54.4
| 73 | F126F (TTT→TTC) | clpP | proteolytic subunit of ClpA‑ClpP and ClpX‑ClpP ATP‑dependent serine proteases |
| Reads supporting (aligned to +/- strand): ref base T (11/21); new base C (28/13); total (39/34) |
| Fisher's exact test for biased strand distribution p-value = 4.97e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGCCTCGATGGGCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAGGCGACCGAT > minE/285471‑285589
|
cggcCTCGATGGGCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTcgc > 1:2564828/1‑69 (MQ=255)
cggcCTCGATGGGCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTcgc > 1:2063067/1‑69 (MQ=255)
cGATGGGTGCTTTCTTGCTGACTGCAGGGGCAAAAGGTAAACGTTTCtgcc > 1:794538/1‑51 (MQ=255)
cGATGGGTGCTTTCTTGCTGACTGCAGGGGCAAAAGGTAAACGTTTCtgcc > 1:1919444/1‑51 (MQ=255)
cGATGGGTGCTTTCTTGCTGACTGCAGGGGCAAAAGGTAAACGTTTCtgcc > 1:1334192/1‑51 (MQ=255)
cGATGGGTGCTTTCTTGCTGACTGCAGGGGCAAAAGGTAAACGTTTCtgcc > 1:1787675/1‑51 (MQ=255)
cGATGGGTGCTTTCTTGCTGACTGCAGGGGCAAAAGGTAAACGTTTCtgcc > 1:1460889/1‑51 (MQ=255)
cGATGGGTGCTTTCTTGCTGACTGCAGGGGCAAAAGGTAAACGTTTCtgcc > 1:3303365/1‑51 (MQ=255)
ggCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGAtt < 1:2734328/69‑1 (MQ=255)
ggCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGAtt < 1:2646528/69‑1 (MQ=255)
ggCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGAtt < 1:1839263/69‑1 (MQ=255)
ggCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGAtt < 1:1685265/69‑1 (MQ=255)
ggCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGAtt > 1:923736/1‑69 (MQ=255)
ggCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGAtt < 1:1106756/69‑1 (MQ=255)
ggCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGAtt < 1:1282487/69‑1 (MQ=255)
cGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGggcg > 1:2149242/1‑68 (MQ=255)
cGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGggcg > 1:120605/1‑68 (MQ=255)
cGCAGGGGCAAAAGGTAAACGTTTTTGCCTGACGAATTCGCGGGTGATGATTCACCAACCGTTGggcg > 1:1861600/1‑68 (MQ=255)
gCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGggcggc < 1:228052/69‑1 (MQ=255)
cAGGGTCAAAAGGTAAACGTTTCTGCCTGCCGAAtt > 1:236979/1‑36 (MQ=37)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2933870/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:1676276/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:842085/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2410691/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2825842/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2824300/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2814415/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2666778/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2679605/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2742283/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:3435069/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:3373894/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:1737025/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:3122085/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:3063064/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:1388422/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:1808890/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2001051/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2051032/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGt > 1:2055122/1‑43 (MQ=255)
cAGGGGCAAAAGGTAAACGTTTCTGCCTGACGAAATc > 1:488502/1‑37 (MQ=25)
ggggCAAAAGGTAAACGTTTCTGCCTGGCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:2321910/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTTATGATTCACCAGCCGTTGGGCGGCt < 1:3018764/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:2866279/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:2888374/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:3094659/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:479302/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:1039705/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:2575272/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:1113582/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:2075028/67‑1 (MQ=255)
ggggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:1782464/67‑1 (MQ=255)
gggCAAAAGGTAAACGTTTCTGCCTGCCGAATTCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:1767711/66‑1 (MQ=255)
gCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTAc < 1:2523617/66‑1 (MQ=255)
gCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTAc < 1:2399699/66‑1 (MQ=255)
gCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTAc < 1:2063521/66‑1 (MQ=255)
gCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTAc < 1:1825511/66‑1 (MQ=255)
gCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTAc < 1:1757764/66‑1 (MQ=255)
gCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTAc < 1:1594534/66‑1 (MQ=255)
cAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTAc < 1:2688866/65‑1 (MQ=255)
ggTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAg < 1:711613/69‑1 (MQ=255)
ggTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAg < 1:1175955/69‑1 (MQ=255)
ggTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAg < 1:1532528/69‑1 (MQ=255)
ggTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAg < 1:714777/69‑1 (MQ=255)
ggTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAg < 1:836937/69‑1 (MQ=255)
tAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAgg > 1:2596654/1‑68 (MQ=255)
tAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAGGc > 1:1097105/1‑69 (MQ=255)
tAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAGGc > 1:528034/1‑69 (MQ=255)
tAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAGGc > 1:3373435/1‑69 (MQ=255)
tAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAGGc > 1:1561348/1‑69 (MQ=255)
tAAACGTTTCTGCCTGCCGAAATCGCGCGTGATGATTCACCAGCCGTTGGGCGGCt < 1:950006/56‑1 (MQ=255)
aaaCGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAg < 1:2951801/66‑1 (MQ=255)
cGTTTTTGCCTGCCGATTTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAg < 1:2319577/63‑1 (MQ=255)
ttttGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAGGCGACCGat < 1:2232957/69‑1 (MQ=255)
|
CGGCCTCGATGGGCGCTTTCTTGCTGACCGCAGGGGCAAAAGGTAAACGTTTTTGCCTGCCGAATTCGCGCGTGATGATTCACCAACCGTTGGGCGGCTACCAGGGCCAGGCGACCGAT > minE/285471‑285589
|
| 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
