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 |
2,697,440 |
C→T |
35.5% |
P262P (CCG→CCA) |
mrcA ← |
fused penicillin‑binding protein 1a murein transglycosylase and murein transpeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,697,440 | 0 | C | T | 35.5%
| 29.0
/ 23.0
| 45 | P262P (CCG→CCA) | mrcA | fused penicillin‑binding protein 1a murein transglycosylase and murein transpeptidase |
| Reads supporting (aligned to +/- strand): ref base C (20/9); new base T (6/10); total (26/19) |
| Fisher's exact test for biased strand distribution p-value = 6.02e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.42e-01 |
ACCGTCTTCATAGGCACTTTCGCCATAACGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTGATCG > minE/2697374‑2697506
|
aCCGTCTTCATAGGCACTTTCGCCATAACGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACgg > 1:821746/1‑69 (MQ=255)
cACTTTCGCCATAACGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCa < 1:2336871/68‑1 (MQ=255)
aCTTTCGCCATAACGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCATAGAAAGCAAt > 1:1131414/1‑69 (MQ=255)
aCTTTCGCCATAACGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAAt > 1:3024178/1‑69 (MQ=255)
aCTTTCGCCATAACGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAAt > 1:2310543/1‑69 (MQ=255)
aaCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGt < 1:1164663/69‑1 (MQ=255)
aaCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGt < 1:2051465/69‑1 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCag > 1:2971202/1‑47 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCa > 1:1043457/1‑55 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGt > 1:2794529/1‑68 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGt > 1:75966/1‑68 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGt > 1:3409289/1‑68 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGt > 1:2395817/1‑68 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTg < 1:1056502/69‑1 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTg < 1:2406834/69‑1 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTg < 1:2402660/69‑1 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTg < 1:2891539/69‑1 (MQ=255)
aCGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTg < 1:1955877/69‑1 (MQ=255)
aCGGTTATACATCTCATGGCGCACAATTTCGCTCAGGTACGGCGCAGAGAAAGCaa > 1:1727320/1‑56 (MQ=255)
gTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATa < 1:2634306/69‑1 (MQ=255)
ataCATCTCCTGGCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGtt > 1:926125/1‑69 (MQ=255)
ataCATCTCCTGGCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGtt > 1:991127/1‑69 (MQ=255)
ataCATCTCCTGGCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGtt > 1:2739004/1‑69 (MQ=255)
ataCATCTCCTGGCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGtt > 1:1243432/1‑69 (MQ=255)
ataCATCTCCTGGCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGtt > 1:2413633/1‑69 (MQ=255)
ataCATCTCCTGGCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGtt > 1:2122312/1‑69 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:247004/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:1489378/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:1747853/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:2393485/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:2923474/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:2140013/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:3015040/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:1793823/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:3235904/68‑1 (MQ=255)
ggCGCACCATTTCACTCAGGTATGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGGTAATc < 1:1825824/68‑1 (MQ=255)
cAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTg > 1:2521129/1‑69 (MQ=255)
cAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTg > 1:532265/1‑69 (MQ=255)
cAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTg > 1:2762204/1‑69 (MQ=255)
cAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTg > 1:2476704/1‑69 (MQ=255)
tACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCa > 1:498299/1‑54 (MQ=255)
tACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTGATCg > 1:3181443/1‑69 (MQ=255)
tACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTGATCg > 1:310340/1‑69 (MQ=255)
tACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTGATCg > 1:848410/1‑69 (MQ=255)
tACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTGATCg > 1:2426338/1‑69 (MQ=255)
|
ACCGTCTTCATAGGCACTTTCGCCATAACGGTTATACATCTCCTGGCGCACCATTTCGCTCAGGTACGGCGCAGAGAAAGCAATCTCCGGCGCGTGATAGTTAGCGTTAATCGCCTCAGTGCGTGTCTGATCG > minE/2697374‑2697506
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
