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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
262,906 |
G→A |
50.9% |
S328N (AGC→AAC) |
ribD → |
fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 262,906 | 0 | G | A | 50.9%
| ‑5.6
/ 53.1
| 60 | S328N (AGC→AAC) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| Reads supporting (aligned to +/- strand): ref base G (8/21); new base A (13/17); total (21/39) |
| Fisher's exact test for biased strand distribution p-value = 2.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.08e-01 |
GGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCAATTTAAAT > minE/262853‑262971
|
ggCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt < 1:805570/68‑1 (MQ=255)
ggCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt < 1:681237/68‑1 (MQ=255)
ggCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt < 1:606549/68‑1 (MQ=255)
cGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTa > 1:909796/1‑68 (MQ=255)
cGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTa > 1:79081/1‑68 (MQ=255)
cGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTa > 1:2526757/1‑68 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:105933/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:882929/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:815978/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:699120/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:681949/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:459184/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:2682532/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:2248675/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:1140111/69‑1 (MQ=255)
gggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:1237110/69‑1 (MQ=255)
ggTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:1549726/68‑1 (MQ=255)
tAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt > 1:1178411/1‑60 (MQ=255)
tAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt > 1:2053816/1‑60 (MQ=255)
tAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt > 1:651628/1‑60 (MQ=255)
tAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt > 1:3405524/1‑60 (MQ=255)
tAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGAt > 1:3344504/1‑60 (MQ=255)
gCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATg < 1:1789541/38‑1 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGTATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:2246704/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCa > 1:2352902/1‑37 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:1555087/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:2968688/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:2953138/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:805775/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:947957/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:98519/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:180823/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:2406096/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGct > 1:167040/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGc > 1:1275396/1‑68 (MQ=255)
ccTAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGACAGGGCTTGAGAAATTAGCCGACGct > 1:3176691/1‑68 (MQ=255)
tAAACTATTAGGCACCGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:394024/52‑1 (MQ=39)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:639252/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:1023297/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:1961004/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:214493/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:130319/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:1349645/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:1419664/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:661170/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:2159928/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:1466425/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:59789/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:2600578/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:2210993/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:3120997/52‑1 (MQ=255)
tAAACTATTAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:2838953/52‑1 (MQ=255)
tAAACTATTAGGAAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:1924370/52‑1 (MQ=255)
cTATTAGGCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCa < 1:1590534/68‑1 (MQ=255)
cTATTAGGCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCa < 1:2469397/68‑1 (MQ=255)
cTATTAGGCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCa < 1:657702/68‑1 (MQ=255)
ttAGGCAACGACGCCCGTGGATTATGCACGCTGCCAGGGCTTgag < 1:2267179/45‑1 (MQ=255)
gCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCAATTTaaa < 1:2933968/68‑1 (MQ=255)
gCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCAATTTaaa < 1:249865/68‑1 (MQ=255)
gCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCAATTTaaa < 1:854961/68‑1 (MQ=255)
ccgCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCAATTTaaa < 1:1890739/65‑1 (MQ=255)
gCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAgccgccgcc > 1:263577/1‑53 (MQ=255)
gCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCAATTTAAAt > 1:1995595/1‑66 (MQ=255)
|
GGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACTATTAGGCAGCGACGCCCGCGGATTATGCACGCTGCCAGGGCTTGAGAAATTAGCCGACGCCCCCCAATTTAAAT > minE/262853‑262971
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
