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 |
|
A10 F54 I0 R2
|
227 |
88.8 |
3424874 |
95.5% |
3270754 |
127.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
1,653,890 |
T→C |
9.4% |
L245P (CTA→CCA) |
U712_08495 → |
GTP‑sensing transcriptional pleiotropic repressor CodY |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 1,653,890 | 0 | T | C | 9.4%
| 151.6
/ 5.8
| 53 | L245P (CTA→CCA) | U712_08495 | GTP‑sensing transcriptional pleiotropic repressor CodY |
| Reads supporting (aligned to +/- strand): ref base T (32/16); new base C (3/2); total (35/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCTTTCTATG > CP006881/1653755‑1654027
|
ttcttGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAACGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTaaa > 6:2042/1‑139 (MQ=255)
cttGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTGTATCAAGGTACTAaac > 8:19544/1‑138 (MQ=255)
ttgCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTGTATCAAGGTACTAAAcaacaa < 1:143568/139‑1 (MQ=255)
aaaTTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTaa < 7:252958/138‑1 (MQ=255)
ccGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGaa < 6:416363/139‑1 (MQ=255)
cGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGaaaat > 3:292787/1‑136 (MQ=255)
aTTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGaaaatctaaaat < 8:155923/139‑1 (MQ=255)
aCCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGaaaatctaaaatct > 5:30941/1‑138 (MQ=255)
tCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACT‑AACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAAt > 1:286527/1‑138 (MQ=255)
ttATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTGTATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATcac > 2:10051/1‑138 (MQ=255)
aaCGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTGTATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGaa < 1:10051/138‑1 (MQ=255)
aaCGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATGTCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAAc > 5:345471/1‑139 (MQ=255)
aaCGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAAc > 7:390301/1‑139 (MQ=255)
aaCGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATAAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAAc > 7:8029/1‑139 (MQ=255)
aaCGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATAAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAAc > 5:298854/1‑139 (MQ=255)
cGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGaa < 8:124792/136‑1 (MQ=255)
cGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGaa > 7:124792/1‑136 (MQ=255)
aCTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCttt > 8:98783/1‑139 (MQ=255)
aCTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATAAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCttt > 5:16630/1‑139 (MQ=255)
cTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTc > 7:147074/1‑139 (MQ=255)
ggAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCtt > 6:387697/1‑139 (MQ=255)
ggAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACCAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCtt > 5:97273/1‑139 (MQ=255)
ccGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTAtt > 5:30688/1‑139 (MQ=255)
ccGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTAtt < 8:390301/139‑1 (MQ=255)
ccGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACCAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTAtt < 6:127292/139‑1 (MQ=255)
aTCGAGTCTAGATCATTAGGAATGAAAGGTACTTGTATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATa > 5:196456/1‑138 (MQ=255)
aGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTGTTTTATTTCAAATa > 3:249689/1‑134 (MQ=255)
aGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACCAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATaaa < 3:245198/136‑1 (MQ=255)
tCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGaa > 2:14395/1‑99 (MQ=255)
tCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGaa < 1:14395/99‑1 (MQ=255)
tCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAATGaat > 7:370506/1‑138 (MQ=255)
aTCATTAGGAATGAAAGGTACTTGTATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAAt < 7:19544/139‑1 (MQ=255)
aTCAATAGGAATGAAACGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAAATAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTAGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAAt < 6:207829/139‑1 (MQ=255)
aTTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAg < 7:266212/139‑1 (MQ=255)
ttAGGAATGAAAGGTACTTATATCAAGGTACCAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGc > 8:409581/1‑139 (MQ=255)
tAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAATATCTAAAATCTCATTAATCACAAAAAGACCCCTTTTTGAGGTTTCTTTTTTTATTTAAAATAAAGGAAATCAATAAGCt > 7:149386/1‑139 (MQ=255)
gAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCTTTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCt > 3:391569/1‑136 (MQ=255)
aGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTg < 6:298854/139‑1 (MQ=255)
aGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTg < 8:8029/139‑1 (MQ=255)
cTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGtt > 8:12778/1‑138 (MQ=255)
ttATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTg > 5:425047/1‑138 (MQ=255)
atatCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTcc > 6:389793/1‑129 (MQ=255)
atatCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTcc < 5:389793/129‑1 (MQ=255)
aaGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCt < 5:387697/138‑1 (MQ=255)
aaGGTACCAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCtt > 7:412989/1‑139 (MQ=255)
ggTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCttttt > 6:98935/1‑85 (MQ=255)
ggTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCttttt < 5:98935/85‑1 (MQ=255)
ggTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCTTTc > 5:361800/1‑139 (MQ=255)
gTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGATAGTCtt > 4:88493/1‑136 (MQ=255)
gTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAAAAAGCTTTATTTCCTGGGTTGAAAGTCtt > 3:302115/1‑136 (MQ=255)
aCTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCTTTCTAt > 8:234494/1‑139 (MQ=255)
cTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCTTTc > 3:393021/1‑135 (MQ=255)
cTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCTTTCTATg > 8:41517/1‑139 (MQ=255)
|
TTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGAAAATCTAAAATCTCATTAATCACAAAAAGAACCCTTTTTGAGGGTTCTTTTTTTATTTCAAATAAAGGAAATCAATAAGCTTTATTTCCTGGGTTGAAAGTCTTTCTATG > CP006881/1653755‑1654027
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ 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
