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 |
|
A11 F28 I1 R1
|
134 |
60.5 |
2175152 |
94.0% |
2044642 |
138.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,646,191 |
A→G |
T99A (ACC→GCC) |
ydfV → |
Qin prophage; protein YdfV |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,646,191 | 0 | A | G | 97.1%
| 110.3
/ ‑4.3
| 34 | T99A (ACC→GCC) | ydfV | Qin prophage; protein YdfV |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (19/14); total (20/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
CGGCCATCATCTTACTGGTACAGACACCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGACCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTACCCCTGTCAACAAGCTTTACTTTCTGAGGCGCGCCAGCCCGCGAGGAAAACAAT > NC_000913/1646055‑1646317
|
cGGCCATCATCTTACTGGTACAGACACCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTgacctggcct < 2:364858/140‑1 (MQ=255)
catcTTACTGGTACAGACACCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATa < 2:1064801/140‑1 (MQ=255)
acacCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGt > 1:790345/1‑140 (MQ=255)
acCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAgg < 2:258802/126‑1 (MQ=255)
acCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAgg > 1:258802/1‑126 (MQ=255)
acCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGttt > 2:931844/1‑140 (MQ=255)
cATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAac < 2:985715/132‑1 (MQ=255)
cATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAac > 1:985715/1‑132 (MQ=255)
cATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGtt < 2:847279/137‑1 (MQ=255)
cATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGtt > 1:847279/1‑137 (MQ=255)
cATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTa > 2:471267/1‑140 (MQ=255)
tataCTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATg < 2:454495/140‑1 (MQ=255)
taCTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCa > 1:485953/1‑140 (MQ=255)
ttGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGACCTGTCGATAAAGGAACGTAACACGTTTTATGCAacac > 1:174454/1‑140 (MQ=255)
gtgACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATg < 2:61565/132‑1 (MQ=255)
gtgACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATg > 1:61565/1‑132 (MQ=255)
gtgACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACAccc > 1:970672/1‑140 (MQ=255)
gACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGc > 1:1050734/1‑140 (MQ=255)
tGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAattat > 1:62744/1‑140 (MQ=255)
cacaACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTg > 1:187252/1‑140 (MQ=255)
cacaACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTg > 1:61104/1‑140 (MQ=255)
aactcaactTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCg < 2:982937/140‑1 (MQ=255)
actcaactTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGa > 1:363414/1‑140 (MQ=255)
actcaactTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGa > 2:564368/1‑140 (MQ=255)
ctcaactTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGaa > 2:185424/1‑140 (MQ=255)
caactTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGa < 2:159665/137‑1 (MQ=255)
caactTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGa > 1:159665/1‑137 (MQ=255)
ttCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTAccc < 1:564368/140‑1 (MQ=255)
tCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGcc < 1:383775/124‑1 (MQ=255)
tCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGcc > 2:383775/1‑124 (MQ=255)
tttGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTAc > 1:139086/1‑127 (MQ=255)
tttGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTAc < 2:139086/127‑1 (MQ=255)
cTTTCTCGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTACCCCTGTCAACAAGCTTTACTTTCTGAGGCGCGCCAg > 1:607834/1‑140 (MQ=255)
tctcGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTACCCCTGTCAACAAGCTTTACTTTCTGAGGCGCGCCAGccc < 2:607834/140‑1 (MQ=255)
tctcGTCGGCGGGTGAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTACCCCTGTCAACAAGCTTTACTTTCTGAGGCGCGCCAGccc < 2:62744/140‑1 (MQ=255)
gAGCGGTGACCTGGCCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTACCCCTGTCAACAAGCTTTACTTTCTGAGGCGCGCCAGCCCGCGAGGAAAACAAt < 2:310742/140‑1 (MQ=255)
|
CGGCCATCATCTTACTGGTACAGACACCATATACTTTGTGACGGTCAGGCTACATATGCACAACTCAACTTATTCATCTATTTTTTGCTTTAGCATGTCAGTGTTGCTTTCTCGTCGGCGGGTGAGCGGTGACCTGACCTGTCGATAAAGGAACGTAACACGTTTTATGCAACACCCGCATGCGGCAGAAAATTATTGCCGAACGTTTACCCCTGTCAACAAGCTTTACTTTCTGAGGCGCGCCAGCCCGCGAGGAAAACAAT > NC_000913/1646055‑1646317
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
