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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,359,876 |
C→T |
38.5% |
noncoding (1219/2905 nt) |
rrlA ← |
23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,359,876 | 0 | C | T | 38.5%
| 96.9
/ 91.5
| 83 | noncoding (1219/2905 nt) | rrlA | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base C (37/14); new base T (20/12); total (57/26) |
| Fisher's exact test for biased strand distribution p-value = 3.45e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.85e-01 |
GCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCGGT > minE/2359818‑2359944
|
gCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAg > 1:1882702/1‑71 (MQ=34)
gCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGACTCACAGCACACCTTCACAg > 1:365894/1‑71 (MQ=21)
ttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt > 1:1860690/1‑71 (MQ=255)
tATCTTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:1767217/1‑70 (MQ=25)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:681136/70‑1 (MQ=255)
aTCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCtt < 1:145267/70‑1 (MQ=35)
aTCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa > 1:1125325/1‑71 (MQ=34)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1385299/1‑70 (MQ=255)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:1000127/71‑1 (MQ=255)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:1620570/71‑1 (MQ=255)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:1194540/1‑71 (MQ=34)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:724806/1‑71 (MQ=34)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAAc > 1:1354089/1‑71 (MQ=34)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAAc > 1:865964/1‑71 (MQ=255)
cTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACg < 1:494623/71‑1 (MQ=255)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa > 1:1567782/1‑62 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTcccc > 1:1224468/1‑71 (MQ=255)
cAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:1930728/1‑62 (MQ=255)
cAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTcccc > 1:112269/1‑70 (MQ=255)
aGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTcaca > 1:888889/1‑50 (MQ=38)
aGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:237522/1‑48 (MQ=32)
aGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:883027/70‑1 (MQ=35)
aGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:1276086/1‑71 (MQ=34)
ttCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAg < 1:1464258/47‑1 (MQ=38)
ttCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:594395/1‑70 (MQ=35)
ttCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:854320/1‑69 (MQ=35)
ttCGCACTTCTGATACCTACAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:1609699/1‑70 (MQ=255)
tCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCca > 1:2168208/1‑70 (MQ=255)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAgg > 1:1092052/1‑46 (MQ=38)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGc > 1:139268/1‑47 (MQ=38)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGc > 1:178057/1‑47 (MQ=38)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa > 1:1730691/1‑70 (MQ=35)
cGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa > 1:2117271/1‑70 (MQ=255)
gCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:2072984/70‑1 (MQ=35)
gCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAc > 1:441747/1‑65 (MQ=255)
aCTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:567237/68‑1 (MQ=255)
aCTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:1891187/68‑1 (MQ=255)
aCTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:1271579/68‑1 (MQ=255)
cTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCt < 1:852372/55‑1 (MQ=35)
cTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca < 1:1784140/71‑1 (MQ=35)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:268285/1‑38 (MQ=11)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:1619419/1‑38 (MQ=11)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:253619/1‑38 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTc < 1:66421/55‑1 (MQ=11)
tCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:20193/1‑71 (MQ=39)
tCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:2079180/1‑71 (MQ=39)
tCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTA‑CCAACAAcaca > 1:414342/1‑70 (MQ=255)
tCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacgc > 1:508960/1‑68 (MQ=11)
cTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:1906932/1‑35 (MQ=33)
cTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:68344/1‑35 (MQ=33)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca > 1:2053354/1‑68 (MQ=37)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca < 1:118776/70‑1 (MQ=40)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGc > 1:1471162/1‑40 (MQ=14)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:2014475/1‑48 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:2012143/1‑48 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacgc < 1:945315/69‑3 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCATCACAGGc > 1:959932/1‑40 (MQ=14)
cTGATACCTCCAGCATACCTCACACTACACCTTCACAGGCTTACACaa > 1:1596364/1‑48 (MQ=11)
tGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTcccc < 1:1172456/55‑1 (MQ=11)
gATACCTCCAGCATACCTCACAGTACACCTTcaca > 1:1576925/1‑35 (MQ=14)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgt < 1:1578604/71‑1 (MQ=255)
tACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTa > 1:2086621/1‑54 (MQ=35)
tACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtg < 1:1408136/71‑1 (MQ=255)
cTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:1041566/57‑1 (MQ=11)
cTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac < 1:1302420/57‑1 (MQ=11)
ccAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaac > 1:110835/1‑55 (MQ=11)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:27162/1‑56 (MQ=35)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:1732113/1‑56 (MQ=35)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:128415/1‑56 (MQ=35)
cAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:844509/1‑56 (MQ=35)
aGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTg < 1:366324/70‑1 (MQ=255)
gCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:1273978/1‑42 (MQ=38)
aTGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:1767608/1‑62 (MQ=255)
aTGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:750227/1‑62 (MQ=255)
tGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTc < 1:2169006/38‑1 (MQ=40)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGc < 1:1198644/60‑1 (MQ=255)
tCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGc < 1:554817/60‑1 (MQ=255)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTc > 1:713847/1‑71 (MQ=255)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTc > 1:1710571/1‑71 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCg > 1:1701505/1‑71 (MQ=255)
aGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCGGt > 1:2132578/1‑71 (MQ=255)
aGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCGGt < 1:675362/71‑1 (MQ=255)
gCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:1218803/1‑46 (MQ=255)
|
GCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTTCGGT > minE/2359818‑2359944
|
| 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
