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 |
2,518,697 |
C→A |
26.3% |
M126I (ATG→ATT) |
spoT ← |
bifunctional (p)ppGpp synthetase II and guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,518,697 | 0 | C | A | 26.3%
| 126.6
/ 39.9
| 87 | M126I (ATG→ATT) | spoT | bifunctional (p)ppGpp synthetase II and guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| Reads supporting (aligned to +/- strand): ref base C (58/6); new base A (2/21); total (60/27) |
| Fisher's exact test for biased strand distribution p-value = 8.23e-13 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.66e-01 |
AGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTGAGTTT > minE/2518635‑2518762
|
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGTACCATCGc > 1:439670/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2458462/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:3004185/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:3019822/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2232682/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:3033331/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2846550/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2417721/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2421270/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:3169098/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1700373/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1685362/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:244544/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:394322/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1466618/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1418332/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:425108/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2732939/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2504659/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2507697/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:646798/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:707905/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1210978/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:772727/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1161824/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:866043/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1102679/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:2514555/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:1053258/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGc > 1:254077/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGc > 1:2632868/1‑68 (MQ=255)
aGCGTGCGCATGTTGTGGGTACGGTCGGAAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGc > 1:38319/1‑68 (MQ=255)
cgcATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatc > 1:207257/1‑69 (MQ=255)
cgcATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatc > 1:2001837/1‑69 (MQ=255)
cgcATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatc > 1:1389888/1‑69 (MQ=255)
cgcATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatc > 1:598563/1‑69 (MQ=255)
cgcATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatc > 1:2476495/1‑69 (MQ=255)
cgcATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAat > 1:3130066/1‑68 (MQ=255)
cgaaTGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatc > 1:3077055/4‑69 (MQ=255)
cgaaTGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatc > 1:3080988/4‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:2896553/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:1275770/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:1270565/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:1064008/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:2904489/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:870608/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:959450/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:2572002/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:1506263/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:1855609/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:1966294/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:2302667/1‑69 (MQ=255)
cATGTTGTGGGTACGGTCGGCAAGTTTGATGAGAATGACGCGGATATCCTGCACCATCGCCATAatcat > 1:110304/1‑69 (MQ=255)
gTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAat < 1:3410214/51‑1 (MQ=255)
cAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGcc < 1:728649/68‑1 (MQ=255)
cAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGcc < 1:2037040/68‑1 (MQ=255)
cAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGcc < 1:1887775/68‑1 (MQ=255)
cAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGcc < 1:1474542/68‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCTAAAGTTTTCGGCCt < 1:118749/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCTAAAGTTTTCGGCCt < 1:1327588/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:856235/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:575793/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:558700/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:937937/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:410394/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:409305/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:246102/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:3175448/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:1755182/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:3163006/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:2983283/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:2183165/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:379258/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:3104263/69‑1 (MQ=255)
cAAGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:1881032/69‑1 (MQ=255)
aaGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGcc < 1:1245433/67‑1 (MQ=255)
aaGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:129385/68‑1 (MQ=255)
aGTTTGATGAGAATGACGCGGATATCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:2362925/67‑1 (MQ=255)
tatCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:2808026/45‑1 (MQ=255)
tCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACtt > 1:3153164/1‑68 (MQ=255)
tCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTg > 1:1409663/1‑69 (MQ=255)
tCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTg > 1:2363969/1‑69 (MQ=255)
tCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTg > 1:1027086/1‑69 (MQ=255)
tCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTg > 1:1010710/1‑69 (MQ=255)
tCCTGCACAATCGCCATAATCATCTTGCGAAAGTTTTCGGCCt < 1:742398/43‑1 (MQ=255)
cACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTGAGttt > 1:473469/1‑69 (MQ=255)
cACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTGAGttt > 1:1242627/1‑69 (MQ=255)
|
AGCGTGCGCATGTTGTGGGTACGGTCGGCAAGTTTGATGAGGATGACGCGGATATCCTGCACCATCGCCATAATCATCTTGCGAAAGTTTTCGGCCTGCGCCTCTTTCTTATCGCGGAACTTGAGTTT > minE/2518635‑2518762
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
