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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,572,751 |
T→A |
14.6% |
intergenic (+1519/‑260) |
yibH → / → ysaB |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,572,751 | 0 | T | A | 14.6%
| 155.3
/ 16.6
| 61 | intergenic (+1519/‑260) | yibH/ysaB | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (29/23); new base A (7/2); total (36/25) |
| Fisher's exact test for biased strand distribution p-value = 2.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGGATACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTACTGCTGCGGCAGT > minE/2572683‑2572819
|
aCGGATACTGATAAAAATTCCATCCCCCCTTCAGTCCAATCGGATCCTGAGTGATATACCGCCCCagcagc > 1:1705092/1‑71 (MQ=255)
aCGGATACTGATAAAAATTCCATCCCCCCTTCAGCCCAATCGGATCCTGAGTGATATACCGCCCCtgcagc > 1:3842904/1‑71 (MQ=255)
aCGGATACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCtgctgc > 1:1264693/1‑71 (MQ=255)
cGGATACTGATAAAAATTCCATCCCCCCTTCAGCCCAATCGGATCCTGAGTGATATACCGCCCCTGCAGCg > 1:971589/1‑71 (MQ=255)
ggATACTGATAAAAATTCCATCCCCCTTTCAGCCCAATCGGATCCTGAGTGATATATCGCCCCTGCAGCgg > 1:3260527/1‑71 (MQ=255)
gATACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTTTTATACCGCCCCTGCTGCGGt < 1:2939456/71‑1 (MQ=255)
gATACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGt < 1:858554/71‑1 (MQ=255)
gATACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGt < 1:3895595/71‑1 (MQ=255)
aTACTGATAAAAATTCCATCCCCCCTTCAGTCCAATCGGATCCTGAGTGATATACCGCCCCAGCAGCgggt > 1:2302654/1‑69 (MQ=255)
aTACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCgg > 1:95052/1‑69 (MQ=255)
tACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTa < 1:1229746/71‑1 (MQ=255)
aTAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGtt < 1:420021/71‑1 (MQ=255)
aTAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGtt < 1:2991903/71‑1 (MQ=255)
aTAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGt > 1:1480502/1‑70 (MQ=255)
aTAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGt < 1:2367022/70‑1 (MQ=255)
aaaaaTTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAAt > 1:1951617/1‑66 (MQ=255)
aaaaaTTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTAc > 1:18002/1‑71 (MQ=255)
aaaTTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTAcc > 1:1885943/1‑70 (MQ=255)
aTTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGa > 1:1505057/1‑70 (MQ=255)
ttCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCctgctg < 1:2546707/53‑1 (MQ=255)
ccACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGtt > 1:3575229/1‑62 (MQ=255)
ccACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGtt > 1:462565/1‑62 (MQ=255)
acctacctTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAg < 1:1701539/71‑1 (MQ=255)
tacctTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGt > 1:1640274/1‑69 (MQ=255)
acctTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGtt > 1:3536187/1‑50 (MQ=255)
acctTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTta > 1:1234728/1‑70 (MQ=255)
cctTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTta > 1:3408042/1‑69 (MQ=255)
ctTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAg > 1:33221/1‑71 (MQ=255)
ccAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTa > 1:2369483/1‑52 (MQ=255)
ccAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTa > 1:2098054/1‑70 (MQ=255)
cAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTa > 1:2448899/1‑69 (MQ=255)
cccAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAAt > 1:3901818/1‑44 (MQ=255)
cccAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGcc < 1:2415230/71‑1 (MQ=255)
cccAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGcc > 1:1589666/1‑71 (MQ=255)
aaTCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGcg > 1:438408/1‑67 (MQ=255)
aaTCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCt > 1:1836065/1‑70 (MQ=255)
ggAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGAtt < 1:872306/70‑1 (MQ=255)
ggAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGAtt < 1:1580718/70‑1 (MQ=255)
ggAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGAtt < 1:2982393/70‑1 (MQ=255)
atccTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTAGCGataa < 1:654806/44‑1 (MQ=255)
aGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGtt < 1:3340648/51‑1 (MQ=255)
aGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATtcat > 1:1845928/1‑71 (MQ=255)
ccTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATtcat < 1:2599422/69‑1 (MQ=255)
ccTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATtcat < 1:2594785/69‑1 (MQ=255)
cTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATtcatcat < 1:2546252/71‑1 (MQ=255)
cTGAGTAATATACCGCCCCTGCAACGGATCGTAGTACCGGTGACGGTTATAGTACAGCCCTGATtcctcat > 1:2800266/1‑71 (MQ=255)
cTGAGTAATATACCGCCCCTGCAACGGATCGTAGTACCGGTGACGGTTATAGTACAGCCCTGATtcctcat > 1:2757228/1‑71 (MQ=255)
tGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACa > 1:1807583/1‑55 (MQ=255)
tGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACa > 1:699314/1‑55 (MQ=255)
aGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATtcatcatca > 1:3186258/1‑70 (MQ=255)
aGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATtcatcatc < 1:252641/69‑1 (MQ=255)
aGTGTTATACCGCCCCTGCTGCGCTTAATGTTACCGATAATAGTTATAGTACAGCCCTGa > 1:228955/1‑60 (MQ=255)
ttATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTAc < 1:3376186/48‑1 (MQ=255)
ttATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCAtacta > 1:2032810/1‑71 (MQ=255)
ttATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCAtact < 1:185563/70‑1 (MQ=255)
atataCCGCCCCTGCAACGGATCGTAGTGCCGGTGACGGTTATAGTACAGCCCCGACtcctcatca > 1:2112735/2‑66 (MQ=255)
atataCCGCCCCTGCAACGGATCGTAGTACCGGTGACGGTTATAGTACAGCCCTGATTCCTCATCAtgct < 1:2733995/69‑1 (MQ=255)
tataCCGCCCCTGCAACGGATCGTAGTACCGGTGACGGTTATAGTACAGCCCTGATTCCTCATCAtgctgc < 1:3511058/71‑3 (MQ=255)
ataCCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCAtactac < 1:1069720/70‑1 (MQ=255)
ataCCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATactact > 1:2429657/1‑71 (MQ=255)
aCCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTActg < 1:2545138/70‑1 (MQ=255)
aCCGCCCCTGCAACGGATCGTAGTACCGGTGACGGTTATAGTACAGCCCTGATTCCTCATCATGctgctg > 1:3789815/1‑70 (MQ=255)
ccccTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTACTGCTGCg < 1:3033957/71‑1 (MQ=255)
ccTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTACTGCTGCgg > 1:2870024/1‑70 (MQ=255)
ccTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTACTGCTGCgg > 1:2425114/1‑70 (MQ=255)
ctgctgCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATtcatca < 1:3312446/52‑1 (MQ=255)
ctgctgCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTACTGCTGCGGCa < 1:1001683/71‑1 (MQ=255)
gctgcGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGAt > 1:2934238/1‑44 (MQ=255)
ctgcGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTACTGCTGCGGCAGt < 1:3121611/70‑1 (MQ=255)
tgcGGTTAATGTTACCGATAATAGTTATAGTACAg < 1:3089169/35‑1 (MQ=255)
tgcGGTTAATGTTACCGATAATAGTTATAGTACAg < 1:770132/35‑1 (MQ=255)
tgcGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCAtacta < 1:3704522/56‑1 (MQ=255)
|
ACGGATACTGATAAAAATTCCACCTACCTTCCAGCCCAATCGGAGCCTGAGTGTTATACCGCCCCTGCTGCGGTTAATGTTACCGATAATAGTTATAGTACAGCCCTGATTCATCATCATACTACTGCTGCGGCAGT > minE/2572683‑2572819
|
| 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
