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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,501,102 |
T→C |
69.1% |
noncoding (16/85 nt) |
leuX → |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,501,102 | 0 | T | C | 69.1%
| 77.1
/ 44.5
| 55 | noncoding (16/85 nt) | leuX | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base T (11/6); new base C (27/11); total (38/17) |
| Fisher's exact test for biased strand distribution p-value = 7.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
GGTGGCGTGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTCGAGTCCGGCCT > W3110S.gb/4501036‑4501162
|
ggtggCGTGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCgg > 1:2176762/1‑70 (MQ=255)
ggtggCGTGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCgg > 1:850732/1‑70 (MQ=255)
ggtggCGTGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCgg > 1:3198224/1‑70 (MQ=255)
gtggCGTGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTa < 1:1642951/71‑1 (MQ=255)
gTGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGc < 1:2540625/71‑1 (MQ=255)
gTGCGACAGGTATAATCCACAACGTTTCCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGc < 1:726539/71‑1 (MQ=255)
tGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGc < 1:303504/70‑1 (MQ=255)
gACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGtt < 1:2217070/71‑1 (MQ=255)
gACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGtt < 1:3204591/71‑1 (MQ=255)
gACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGtt < 1:3170420/71‑1 (MQ=255)
ataATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCgg > 1:3083779/1‑53 (MQ=255)
ataATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCgg > 1:21489/1‑53 (MQ=255)
ataATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCg > 1:1113849/1‑52 (MQ=255)
ataATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCa > 1:113269/1‑70 (MQ=255)
taATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCaa > 1:494392/1‑70 (MQ=255)
taATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCaa > 1:2616829/1‑70 (MQ=255)
taATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCaa > 1:861267/1‑70 (MQ=255)
aTCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAAt > 1:226305/1‑71 (MQ=255)
aTCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAAt > 1:2744235/1‑71 (MQ=255)
aTCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAAt > 1:1787356/1‑71 (MQ=255)
ccACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATc > 1:2342939/1‑70 (MQ=255)
ccACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATc > 1:2766501/1‑70 (MQ=255)
cacaACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCaa > 1:4988/1‑71 (MQ=255)
cacaACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCaa > 1:3078785/1‑71 (MQ=255)
cacaACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCaa > 1:715506/1‑71 (MQ=255)
aCGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCaaaa > 1:2415748/1‑63 (MQ=255)
aCGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCaaaa > 1:643997/1‑63 (MQ=255)
aCGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCaaaa > 1:1578039/1‑63 (MQ=255)
aCGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCaaa > 1:3688987/1‑62 (MQ=255)
ttttCCGCATACCTCTTCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGa < 1:3334219/71‑1 (MQ=255)
cGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATa < 1:2780747/70‑1 (MQ=255)
ttCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGa > 1:1368168/1‑38 (MQ=255)
ttCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGa > 1:3655689/1‑38 (MQ=255)
ttCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGa > 1:3022729/1‑38 (MQ=255)
ttCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGa > 1:1941115/1‑38 (MQ=255)
ttCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGa > 1:737353/1‑38 (MQ=255)
ttCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGa > 1:1263650/1‑38 (MQ=255)
ttCAGTGCCGAAGTGGCGAAACCGGTAGACGCAGtt < 1:3432917/36‑1 (MQ=255)
cAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTc > 1:2923149/1‑69 (MQ=255)
cAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTc > 1:2473079/1‑69 (MQ=255)
cAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTc > 1:3693003/1‑69 (MQ=255)
cAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTc < 1:843680/69‑1 (MQ=255)
cAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTc < 1:2397308/69‑1 (MQ=255)
cAGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTc < 1:1372668/69‑1 (MQ=255)
aGTGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTc < 1:1353952/68‑1 (MQ=255)
tGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTCGAGTc < 1:1740046/71‑1 (MQ=255)
tGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTCGAGTc < 1:2436705/71‑1 (MQ=255)
tGCCGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTCGAGTc < 1:2306914/71‑1 (MQ=255)
ccGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAAc > 1:540535/1‑43 (MQ=255)
ccGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAAc > 1:707083/1‑43 (MQ=255)
ccGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAAc > 1:1909318/1‑43 (MQ=255)
ccGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAAc > 1:2981315/1‑43 (MQ=255)
ccGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAAc > 1:2038410/1‑43 (MQ=255)
ccGAAGTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAAc > 1:2394713/1‑43 (MQ=255)
gTGGCGAAACCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTCGAGTCCGGCCt > 1:1479978/1‑70 (MQ=255)
|
GGTGGCGTGCGACAGGTATAATCCACAACGTTTTCCGCATACCTCTTCAGTGCCGAAGTGGCGAAATCGGTAGACGCAGTTGATTCAAAATCAACCGTAGAAATACGTGCCGGTTCGAGTCCGGCCT > W3110S.gb/4501036‑4501162
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
