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 |
|
A11 F1 I1 R1
|
21 |
62.2 |
4089897 |
94.3% |
3856772 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,318,527 |
+AC |
coding (1393/1446 nt) |
tldD ← |
predicted peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,318,524 | 1 | . | C | 85.7%
| 167.8
/ 23.4
| 49 | coding (1396/1446 nt) | tldD | predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base . (5/2); new base C (26/16); total (31/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.47e-01 |
| * | REL606 | 3,318,524 | 2 | . | A | 85.7%
| 157.8
/ 21.7
| 49 | coding (1396/1446 nt) | tldD | predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base . (5/2); new base A (26/16); total (31/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01 |
TATCCTTCTGAAAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAGTTTCAGG > REL606/3318449‑3318588
||
taTCCTTCTGAGAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGc‑‑c > 1:53552/1‑76 (MQ=255)
taTCCTTCTGAAAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGc‑‑c > 1:284207/1‑76 (MQ=255)
ttCTGAAAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑Acac < 1:210273/76‑3 (MQ=255)
tCTGACAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑Acacg > 2:1351015/1‑73 (MQ=255)
tCTGAAAATATTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑Acacg > 1:1927666/1‑73 (MQ=255)
tCTGAAAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑Acacg > 2:403725/1‑73 (MQ=255)
tCTGAAAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑Acacg > 2:1351011/1‑73 (MQ=255)
tCTGAAAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑Acacg > 1:1310224/1‑73 (MQ=255)
aCTNAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGc > 1:1838405/1‑76 (MQ=255)
gAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCaaa > 2:714562/1‑76 (MQ=255)
aaaTTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAAc < 1:704175/76‑1 (MQ=255)
attattACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACtt > 1:1401622/1‑76 (MQ=255)
tgttaAGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAAACGGCAAACTTTg < 2:85731/74‑1 (MQ=255)
tattaCGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTg < 2:1866457/76‑1 (MQ=255)
tattaCGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTg > 1:216467/1‑76 (MQ=255)
tagtaCGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTg < 2:1345736/73‑1 (MQ=255)
taCGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGccc > 2:1841521/1‑76 (MQ=255)
aCGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCct > 2:701884/1‑76 (MQ=255)
cGCAGTACCGCCAACAGTCAGGTGATGNACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCctt > 2:1778/1‑76 (MQ=255)
cAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCcttct > 1:411025/1‑76 (MQ=255)
cAGNACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCcttct > 1:1834714/1‑76 (MQ=255)
aGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCcttctt > 2:804133/1‑76 (MQ=255)
aGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCcttctt > 2:1311553/1‑76 (MQ=255)
gTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCttt < 1:1069199/76‑1 (MQ=255)
gTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCttt < 2:1491489/76‑1 (MQ=255)
gTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑ACANGCCGACCGGCAAACTTTGCCCTTCttt < 2:2619/76‑1 (MQ=255)
tACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTa > 2:673420/1‑76 (MQ=255)
ccGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCGTTAcc > 2:78680/1‑76 (MQ=255)
cGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCg > 2:1684363/1‑76 (MQ=255)
gCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGc < 2:1087375/76‑1 (MQ=255)
aCAGTCAGGTTATCAACGGTCAGCATAGGCTGGCTAA‑‑G‑‑AC‑‑GCCGACCGCCAAACTTTGCCCTACTTTAGCGTAGac > 1:2041942/1‑76 (MQ=255)
aGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGacac > 2:1849255/1‑76 (MQ=255)
cAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCa > 1:1213665/1‑76 (MQ=255)
cAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCa > 1:1477615/1‑76 (MQ=255)
ggTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACg < 1:460068/76‑1 (MQ=255)
ggTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACg < 2:530792/76‑1 (MQ=255)
gTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGc < 1:1311554/76‑1 (MQ=255)
gTTATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGc < 1:804134/76‑1 (MQ=255)
ttATCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGcc > 2:1504264/1‑76 (MQ=255)
aTCAACTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGt > 1:659542/1‑76 (MQ=255)
aaCTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTAt < 2:776341/76‑1 (MQ=255)
aaCTTTCAGCGTTGGCTCGC‑‑C‑‑CAGAG‑‑GCCAACCGGCAAANTTTGCACTTCTTTACNGCAGACCCCCACGCCGTTAt > 2:2019605/1‑76 (MQ=255)
aCTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATc > 2:801577/1‑76 (MQ=255)
cTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATcc > 1:1054326/1‑76 (MQ=255)
cTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATcc < 1:209357/76‑1 (MQ=255)
cTTTCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATca < 2:848952/76‑2 (MQ=255)
tttCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCa < 2:876869/76‑1 (MQ=255)
ttCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAg > 1:691041/1‑76 (MQ=255)
tCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAGt > 2:1172161/1‑76 (MQ=255)
tCAGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAGt > 1:580537/1‑76 (MQ=255)
aGCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAGttt > 2:1834165/1‑76 (MQ=255)
gCGTTGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAGTTTc < 1:1103189/76‑1 (MQ=255)
ttGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACGCCCACGCCGNTATCCAGTTTCAgg < 1:9528/76‑1 (MQ=255)
ttGGCTGGC‑‑CCAC‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAGTTTCAgg > 1:1226596/1‑76 (MQ=255)
||
TATCCTTCTGAAAATACTGAAATTATTACGCAGTACCGCCAACAGTCAGGTTATCAACTTTCAGCGTTGGCTGGC‑‑C‑‑C‑‑AC‑‑GCCAACCGGCAAACTTTGCCCTTCTTTACCGCAGACACCCACGCCGTTATCCAGTTTCAGG > REL606/3318449‑3318588
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
