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 F1 I1 R1
|
759 |
65.2 |
3386260 |
90.7% |
3071337 |
101.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,982,684 |
(C)8→9 |
noncoding (79/87 nt) |
leuT → |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,982,676 | 1 | . | C | 95.6%
| 146.6
/ ‑0.3
| 45 | noncoding (71/87 nt) | leuT | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (23/20); total (24/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
CCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCCTCTC > NC_000913/3982549‑3982801
|
ccAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑ccccccccct > 2:328460/1‑136 (MQ=255)
ccAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑ccccccccct < 1:328460/138‑3 (MQ=255)
aTTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑ccc > 2:370593/1‑107 (MQ=255)
aTTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑ccc < 1:370593/107‑1 (MQ=255)
ccACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTaaa > 1:1376864/1‑139 (MQ=255)
cccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAAtt > 2:748579/1‑139 (MQ=255)
gAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGt > 2:1231521/1‑139 (MQ=255)
gTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTAtt < 1:1231521/139‑1 (MQ=255)
gtgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTc > 2:1095154/1‑139 (MQ=255)
gtgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTc > 1:249390/1‑139 (MQ=255)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGt > 2:192548/1‑78 (MQ=38)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGt < 1:192548/78‑1 (MQ=38)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGcacca > 1:921329/1‑95 (MQ=255)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGcacca < 2:921329/95‑1 (MQ=255)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAg > 1:641025/1‑129 (MQ=255)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAg < 2:641025/129‑1 (MQ=255)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg < 1:1095154/139‑1 (MQ=255)
cAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCg < 2:265519/139‑1 (MQ=255)
cGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGcaccac > 2:1118272/1‑88 (MQ=9)
cGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGcaccac < 1:1118272/88‑1 (MQ=9)
tGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGaa > 1:1459979/1‑94 (MQ=255)
tGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGaa < 2:1459979/94‑1 (MQ=255)
gCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCtt > 2:911728/1‑139 (MQ=255)
cGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGaa < 2:794337/91‑1 (MQ=255)
cGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGaa > 1:794337/1‑91 (MQ=255)
ggTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTa < 2:571170/110‑1 (MQ=255)
ggTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTa > 1:571170/1‑110 (MQ=255)
tAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCaa < 1:748579/139‑1 (MQ=255)
aGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAAc < 2:1376864/139‑1 (MQ=255)
cgcgCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGcaccac < 1:1445962/66‑1 (MQ=255)
cgcgCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGcaccac > 2:1445962/1‑66 (MQ=255)
cgcgCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTaaaa < 1:1287403/89‑1 (MQ=255)
cgcgCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTaaaa > 2:1287403/1‑89 (MQ=255)
tAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg > 2:1527555/1‑104 (MQ=255)
tAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg < 1:1527555/104‑1 (MQ=255)
tAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAg > 2:732812/1‑112 (MQ=255)
tAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAg < 1:732812/112‑1 (MQ=255)
ttAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCaa < 2:506756/118‑1 (MQ=255)
ttAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCaa > 1:506756/1‑118 (MQ=255)
ttAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTc > 1:508354/1‑139 (MQ=255)
aCGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTg < 1:434802/53‑1 (MQ=21)
aCGGACGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTg > 2:434802/1‑53 (MQ=21)
cGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTgg < 1:398610/111‑1 (MQ=255)
cGTGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTgg > 2:398610/1‑111 (MQ=255)
tGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCctctc > 1:432735/1‑139 (MQ=255)
tGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCct < 2:1349043/136‑1 (MQ=255)
tGGGGGTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCct > 1:1349043/1‑136 (MQ=255)
ggggTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTaaaa > 2:92763/1‑52 (MQ=37)
ggggTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTaaaa < 1:92763/52‑1 (MQ=37)
ggggTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg < 2:240105/72‑1 (MQ=255)
ggggTTCAAGTCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg > 1:240105/1‑72 (MQ=255)
|
CCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCCTCTC > NC_000913/3982549‑3982801
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
