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 |
2,188,658 |
G→A |
76.0% |
A67A (GCC→GCT) |
nanA ← |
N‑acetylneuraminate lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,188,658 | 0 | G | A | 76.0%
| 106.2
/ 29.2
| 87 | A67A (GCC→GCT) | nanA | N‑acetylneuraminate lyase |
| Reads supporting (aligned to +/- strand): ref base G (5/16); new base A (16/50); total (21/66) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GGCTTTCGGCGGTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTGTTCACGCTCGGAAAGGCTTTGTACAA > minE/2188594‑2188704
|
ggCTTTCGGCGGTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGcg > 1:3240806/1‑68 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2958118/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1858030/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1874101/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:3325512/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:3164245/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:3160121/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:3128660/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2191818/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2201400/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2028501/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2938942/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2362181/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2420755/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2422627/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:284619/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2474555/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2479301/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:2572171/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1164859/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1186278/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:893464/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:841111/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1561711/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1566407/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1659998/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1768034/67‑1 (MQ=255)
ggcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1707048/67‑1 (MQ=255)
gcggTGCTGACGCAACCGATGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:2978013/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:332560/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:1642384/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:2827792/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:348936/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:1281838/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:677120/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:2411595/68‑1 (MQ=255)
gcggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:2474245/68‑1 (MQ=255)
cggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTcc < 1:1508592/68‑1 (MQ=255)
cggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:3309827/67‑1 (MQ=255)
cggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:781889/67‑1 (MQ=255)
cggTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1795718/65‑1 (MQ=255)
cggTGCTGACCCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:3373227/67‑1 (MQ=255)
cTGACGCAACCGACGTGGTCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACTAtt < 1:783615/60‑1 (MQ=255)
gACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTg > 1:2009726/1‑69 (MQ=255)
cGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTc < 1:2717127/58‑1 (MQ=255)
gCAACCGCCGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTTCCTGtt > 1:2510672/1‑68 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTGtt < 1:93718/68‑1 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTGtt < 1:2557303/68‑1 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:2679150/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:1378441/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:823378/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:526339/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:3396485/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:3327143/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:1863601/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:3313399/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:2169171/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:2623357/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:2991773/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:3061237/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:2282637/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAGTTCCAGTACCTGTTc > 1:1817876/1‑69 (MQ=255)
gCAACCGACGTGGGCGATGAGTATAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGTTc > 1:245053/1‑69 (MQ=255)
aaCCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:476505/53‑1 (MQ=255)
cGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGAtt < 1:1798140/50‑1 (MQ=255)
ggCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTGTTCACGCTCGGAAAg > 1:2140372/1‑69 (MQ=255)
ggCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTGTTCACGCTCGGAAAg > 1:2165622/1‑69 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:217779/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:3302097/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:2699268/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:885662/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:1411548/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:1006278/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:1623597/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:1643006/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:703397/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:563517/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:358011/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:2285036/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:1843936/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:3361673/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:2151340/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:2959642/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:3325390/53‑1 (MQ=255)
gATGAGTTTAATCTTACCTTTCGCCTCTTCAGCGACCATTTCCAGTACCTGtt < 1:64295/53‑1 (MQ=39)
gATGACTTTAATCTTACCTTTCGCCTCTTCAGCGACGATTTCCAGTACCTGtt < 1:2140391/53‑1 (MQ=39)
tAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTGTTCACGCTCGGAAAGGCTTTGTACaa > 1:2258280/1‑69 (MQ=255)
|
GGCTTTCGGCGGTGCTGACGCAACCGACGTGGGCGATGAGTTTAATCTTACCTTTCGCCTCTTCGGCGACGATTTCCAGTACCTGTTCACGCTCGGAAAGGCTTTGTACAA > minE/2188594‑2188704
|
| 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
