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 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,100,981 |
A→G |
27.8% |
H176H (CAT→CAC) |
yggH ← |
tRNA (m7G46) methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,100,981 | 0 | A | G | 27.8%
| 51.2
/ 24.4
| 36 | H176H (CAT→CAC) | yggH | tRNA (m7G46) methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (13/13); new base G (7/3); total (20/16) |
| Fisher's exact test for biased strand distribution p-value = 4.56e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
TTTTATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGATACGGC > W3110S.gb/3100911‑3101048
|
ttttATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCata > 1:929591/1‑71 (MQ=255)
ttttATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCata > 1:3882947/1‑71 (MQ=255)
ttttATAACCGTCAATAGAAGACAACACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCata > 1:2373503/1‑71 (MQ=255)
ataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTgg < 1:2733294/70‑1 (MQ=255)
ataACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:1992487/70‑1 (MQ=255)
taACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCata > 1:1618086/1‑66 (MQ=255)
taACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:1429355/69‑1 (MQ=255)
taACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGaa < 1:1618134/71‑1 (MQ=255)
taACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGaa < 1:1660282/71‑1 (MQ=255)
tCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCata < 1:2084566/60‑1 (MQ=255)
tCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCata < 1:681814/60‑1 (MQ=255)
aaTAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGccc > 1:3196197/1‑70 (MQ=255)
aaTAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGccc > 1:304128/1‑70 (MQ=255)
aaTAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGccc > 1:2969672/1‑70 (MQ=255)
gaagaCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGaa > 1:2885066/1‑59 (MQ=255)
gaagaCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGaa > 1:2736054/1‑59 (MQ=255)
gaCATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGaa < 1:3352342/56‑1 (MQ=255)
tCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCa < 1:4058236/69‑1 (MQ=255)
tCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCACCCCAGCTGCa < 1:3990705/69‑1 (MQ=255)
aCTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATg > 1:996124/1‑47 (MQ=255)
aCTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGttt > 1:2538186/1‑71 (MQ=255)
aCTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGttt > 1:736977/1‑71 (MQ=255)
cAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGaa > 1:1211595/1‑46 (MQ=255)
cAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGaa > 1:1685457/1‑46 (MQ=255)
cAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGaa > 1:2553721/1‑46 (MQ=255)
cAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGaa > 1:2469189/1‑46 (MQ=255)
cAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGc < 1:28055/69‑1 (MQ=255)
cAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCtt > 1:209440/1‑71 (MQ=255)
aGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCtttt < 1:856415/71‑1 (MQ=255)
aGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCtttt < 1:71109/71‑1 (MQ=255)
tatGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATgg < 1:6262/38‑1 (MQ=255)
tGTTCCGCATAAGGTTCCCAGTCGGTCGCCATGTGGAATa > 1:1061368/1‑40 (MQ=255)
tGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAg > 1:1361766/1‑71 (MQ=255)
tGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAg > 1:1356978/1‑71 (MQ=255)
ccGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCg > 1:3438567/1‑71 (MQ=255)
aGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAAc < 1:3520073/70‑1 (MQ=255)
gTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGc < 1:1052707/71‑1 (MQ=255)
cAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCttttt > 1:3384085/1‑48 (MQ=255)
ggtcgCCATGTGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGa < 1:237818/71‑1 (MQ=255)
ggtcgCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAg > 1:569585/1‑48 (MQ=255)
gCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGATACg > 1:1489647/1‑71 (MQ=255)
cATGTGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGATACGGc < 1:1875705/71‑1 (MQ=255)
|
TTTTATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCTGCAGTTTGCTTTTTACCAGTTCGGCAAACGGCACCTGAACGATACGGC > W3110S.gb/3100911‑3101048
|
| 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
