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 |
|
A8 F1 I2 R1
|
97 |
53.3 |
2484976 |
94.5% |
2348302 |
111.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,823,683 |
C→T |
R428R (CGC→CGT) |
spoT → |
bifunctional (p)ppGpp synthetase II/ guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,823,683 | 0 | C | T | 94.3%
| 100.8
/ ‑0.7
| 35 | R428R (CGC→CGT) | spoT | bifunctional (p)ppGpp synthetase II/ guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base T (22/11); total (23/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.68e-01 |
CTTCCCGGATGAGATTTACGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGCCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAGCGCGCGCCAAAATTCGT > NC_000913/3823548‑3823812
|
ctTCCCGGATGAGATTTACGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAg > 2:107787/1‑139 (MQ=255)
ttCCCGGATGAGATTTACGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGc > 2:764805/1‑139 (MQ=255)
gATGAGATTTACGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTAcc > 2:37648/1‑139 (MQ=255)
agaTTTACGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCt > 1:1085901/1‑139 (MQ=255)
tACGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGc < 2:982892/139‑1 (MQ=255)
aCGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCa > 1:954135/1‑139 (MQ=255)
ttCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGc > 1:424552/1‑139 (MQ=255)
tGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGtt < 2:935425/139‑1 (MQ=255)
tGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGCCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCg > 2:417785/1‑139 (MQ=255)
cAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCggg > 1:358668/1‑139 (MQ=255)
aCGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGgcg < 2:424552/139‑1 (MQ=255)
gCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGc > 1:1142926/1‑89 (MQ=255)
gCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGc < 2:1142926/89‑1 (MQ=255)
aCTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGaa < 1:107787/139‑1 (MQ=255)
gCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACTAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCg < 2:1085901/139‑1 (MQ=255)
ttATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGCCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCt < 1:417785/139‑1 (MQ=255)
cATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACt > 1:1215755/1‑139 (MQ=255)
aCCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTg > 1:433382/1‑139 (MQ=255)
atatCGGTCATGCCTGCGTGGACGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCTGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGt < 2:721654/139‑1 (MQ=255)
tatCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGtt > 2:694768/1‑139 (MQ=255)
tatCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGtt > 2:776649/1‑139 (MQ=255)
tGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCt < 2:465097/97‑1 (MQ=255)
tGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCt > 1:465097/1‑97 (MQ=255)
tGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGaaa > 1:919316/1‑139 (MQ=255)
tGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGaaa > 2:1074316/1‑139 (MQ=255)
tGCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGaaa > 1:1212719/1‑139 (MQ=255)
gCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCt > 2:261360/1‑116 (MQ=255)
gCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCt < 1:261360/116‑1 (MQ=255)
gCCTGCGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAg > 1:1052510/1‑139 (MQ=255)
cGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAgcgcgc > 2:1044879/1‑139 (MQ=255)
cGTGGGCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTAAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAgcgcgc > 1:771450/1‑139 (MQ=255)
cGTGGGCGCACGCGTTGAACGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGACGCTTGGCTGAACTTTGTCGTTAGCTCGAAAgcgcgc > 1:1011002/1‑139 (MQ=255)
ggCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAGCGCGCGCCa > 1:1071811/1‑139 (MQ=255)
ggCGCACGCGTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAGCGCGCGCCa < 1:1021165/139‑1 (MQ=255)
cgTTGACCGTCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAGCGCGCGCCAAAATTCGt < 1:764805/139‑1 (MQ=255)
|
CTTCCCGGATGAGATTTACGTTTTCACACCGGAAGGGCGCATTGTCGAGCTGCCTGCCGGTGCAACGCCCGTCGACTTCGCTTATGCAGTGCATACCGATATCGGTCATGCCTGCGTGGGCGCACGCGTTGACCGCCAGCCTTACCCGCTGTCGCAGCCGCTTACCAGCGGTCAAACCGTTGAAATCATTACCGCTCCGGGCGCTCGCCCGAATGCCGCTTGGCTGAACTTTGTCGTTAGCTCGAAAGCGCGCGCCAAAATTCGT > NC_000913/3823548‑3823812
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
