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 F1 I1 R1
|
502 |
34.8 |
1912488 |
98.2% |
1878063 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,454,461 |
C→T |
W313* (TGG→TAG) |
gspA ← |
Type II secretion system protein GspA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,454,461 | 0 | C | T | 100.0%
| 108.4
/ NA
| 30 | W313* (TGG→TAG) | gspA | Type II secretion system protein GspA |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (9/21); total (9/21) |
AAATTCTGATCTACCAATGTTTGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACCAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATCGCGCATCACCAC > NC_000913/3454383‑3454537
|
aaaTTCTGATCTACCAATGTTTGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAg < 1:650538/81‑1 (MQ=255)
aTTCTGATCTACCAATGTTTGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGc < 2:650539/81‑1 (MQ=255)
gATCTACCAATGTTTGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAAt > 2:650572/1‑81 (MQ=255)
aTCTACCAATGTTTGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAAt < 1:650540/80‑1 (MQ=255)
tCTACCAATGTTTGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAAt > 1:650588/1‑79 (MQ=255)
tttGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGAcc < 1:650541/80‑1 (MQ=255)
tttGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCt < 1:650542/81‑1 (MQ=255)
ttGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTc > 1:650591/1‑81 (MQ=255)
gTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCg < 1:650544/80‑1 (MQ=255)
gTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCg < 2:650543/80‑1 (MQ=255)
tAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGt < 1:650545/80‑1 (MQ=255)
agCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCa < 2:650546/81‑1 (MQ=255)
aTTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATAc < 2:650547/81‑1 (MQ=255)
cTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGta > 2:650586/1‑80 (MQ=255)
cAGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAg < 2:650548/81‑1 (MQ=255)
aGCCCCGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAgc < 2:650549/81‑1 (MQ=255)
ccccGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAgcgc > 1:650582/1‑81 (MQ=255)
ccccGCTCTTACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAgcgc < 1:650550/81‑1 (MQ=255)
ttACTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACt < 1:650551/79‑1 (MQ=255)
aCTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTAt < 1:650552/79‑1 (MQ=255)
aCTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATcg > 2:650581/1‑81 (MQ=255)
aCTGCATGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATc < 1:650553/80‑1 (MQ=255)
cTGCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATcgc < 2:650554/81‑1 (MQ=255)
gCCTGATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATcgcg > 2:650587/1‑80 (MQ=255)
ccTGATCACACTTGGCCGAATCAGCTGGGACCTCGTACCCCCATACACCGTATAACACGCTTAGCGCCTCACTATCgcgc < 1:650555/80‑1 (MQ=255)
gATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATCGCGCATca > 2:650593/1‑81 (MQ=255)
gATCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATCGCGCATca > 2:650589/1‑81 (MQ=255)
aTCGCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATCGCGCATcac < 1:650556/81‑1 (MQ=255)
gCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATCGCGCATcaccac < 2:650557/81‑1 (MQ=255)
gCACTAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATCGCGCATcacca < 2:650558/80‑1 (MQ=255)
|
AAATTCTGATCTACCAATGTTTGTAAAGAAGCATTCCCACTTTTACATGCCAGCCCCGCTCTTACTGCCTGATCGCACCAGGCCGAATCAGCTGGGACCTCGTACCCCCATACGCCGTATAACACGCTTAGCGCCTCACTATCGCGCATCACCAC > NC_000913/3454383‑3454537
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
