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 |
|
A3 F17 I0 R2
|
56 |
33.4 |
2651672 |
97.6% |
2588031 |
59.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,058,034 |
C→T |
37.2% |
G279G (GGC→GGT) |
amn → |
AMP nucleosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,058,034 | 0 | C | T | 37.2%
| 41.0
/ 43.1
| 43 | G279G (GGC→GGT) | amn | AMP nucleosidase |
| Reads supporting (aligned to +/- strand): ref base C (18/9); new base T (10/6); total (28/15) |
| 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 |
AAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGCCCGGATGTCTGGTTGAT > W3110S.gb/2057966‑2058102
|
aaaCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:2194027/1‑71 (MQ=255)
cAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGTGTGGGAcc > 1:2461406/1‑71 (MQ=255)
aGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCg > 1:1657502/1‑71 (MQ=255)
ccAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGTGTGGGACCGTCaaa < 1:1638490/71‑1 (MQ=255)
ccAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCaaa > 1:1006434/1‑71 (MQ=255)
cAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCaaa > 1:645799/1‑70 (MQ=255)
cAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCaaa > 1:1923364/1‑70 (MQ=255)
cAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCaaa > 1:1768251/1‑70 (MQ=255)
tGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGc < 1:2538250/51‑1 (MQ=255)
tGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTaa < 1:1942932/71‑1 (MQ=255)
gCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTaaaa > 1:1646730/1‑71 (MQ=255)
aTTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAAcc < 1:2580219/71‑1 (MQ=255)
tttAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCa > 1:846796/1‑71 (MQ=255)
tAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGAc > 1:525989/1‑51 (MQ=255)
tAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATc > 1:1754350/1‑71 (MQ=255)
tAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATc > 1:2360309/1‑71 (MQ=255)
tAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATc > 1:2521079/1‑71 (MQ=255)
cgccgATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGatc < 1:1923728/71‑1 (MQ=255)
gccgATGGTCAGGGTATTACTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGatca > 1:809556/1‑71 (MQ=255)
gccgATGGTCAGGGTATTACTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGatca > 1:656633/1‑71 (MQ=255)
gccgATGGTCAGGGTATTACTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGatca > 1:1435702/1‑71 (MQ=255)
ccgATGGTCAGGGTATTACTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGatcat < 1:887845/71‑1 (MQ=255)
tCAGGGTATTACTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGTCAg < 1:1591298/71‑1 (MQ=255)
tCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAg > 1:2463562/1‑71 (MQ=255)
gTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGatcatc > 1:706323/1‑60 (MQ=255)
tATTACTCTGGTGAATATTGGTGTGGGACCGTCaa < 1:2424380/35‑1 (MQ=255)
tATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCg < 1:1683330/53‑1 (MQ=255)
ttACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACg > 1:391359/1‑70 (MQ=255)
ttACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGc < 1:396491/71‑1 (MQ=255)
ttACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGc < 1:2360399/71‑1 (MQ=255)
ttACTCTGGTGAATATTGGCCTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGc < 1:853775/71‑1 (MQ=255)
aCTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCa > 1:1675792/1‑60 (MQ=255)
aCTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGccc > 1:480530/1‑71 (MQ=255)
aCTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGccc > 1:2487830/1‑71 (MQ=255)
aCTCTGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGccc > 1:1810888/1‑71 (MQ=255)
aCTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGcc < 1:1204273/70‑1 (MQ=255)
ctctGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGCCCg < 1:2509764/71‑1 (MQ=255)
tctGGTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGc < 1:1164709/46‑1 (MQ=255)
tGGTGAATATTGGCGTGGGACCGTCAAATGCTaaaa > 1:1245201/1‑36 (MQ=255)
tGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCAt > 1:1528141/1‑40 (MQ=255)
gTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCAt > 1:2216043/1‑38 (MQ=255)
gTGAATATTGGTGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTg > 1:976792/1‑57 (MQ=255)
ttGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTgg < 1:1158253/45‑1 (MQ=255)
ggCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGCCCGGATGTCTGGTtgat > 1:1608804/1‑71 (MQ=255)
cGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGCCCGGATGTCTGGTtgat < 1:636239/69‑1 (MQ=255)
|
AAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGGACCGTCAAATGCTAAAACCATCTGCGATCATCTGGCAGTGCTACGCCCGGATGTCTGGTTGAT > W3110S.gb/2057966‑2058102
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
