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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,251,287 |
T→C |
pseudogene (327/1323 nt) |
yjbI → |
pseudogene, SopA‑related, pentapeptide repeats‑containing |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,251,287 | 0 | T | C | 96.8%
| 209.6
/ ‑2.1
| 62 | pseudogene (327/1323 nt) | yjbI | pseudogene, SopA‑related, pentapeptide repeats‑containing |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (34/26); total (35/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.78e-01 |
GTGATTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAATTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCAAAGAAA > NC_000913/4251192‑4251381
|
gtgATTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAATTTTc > 2:1279577/1‑100 (MQ=255)
gtgATTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTc > 1:212056/1‑100 (MQ=255)
tgATTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTcg < 1:57749/100‑1 (MQ=255)
gATTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTcgc > 2:1270693/1‑100 (MQ=255)
aTTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTcgcg < 2:1183186/100‑1 (MQ=255)
aTTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTcgcg < 2:888325/100‑1 (MQ=255)
ttttATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGaa > 1:1266921/1‑100 (MQ=255)
tttATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAAt > 1:1170238/1‑100 (MQ=255)
tttATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAAt < 1:1274040/100‑1 (MQ=255)
ttATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATg < 2:1291163/100‑1 (MQ=255)
tATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGt > 2:1104009/1‑100 (MQ=255)
aTCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTc > 1:569098/1‑100 (MQ=255)
tCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCa > 2:72280/1‑100 (MQ=255)
tCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCa > 2:414889/1‑100 (MQ=255)
cAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAg < 1:998396/100‑1 (MQ=255)
cAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAg < 1:749101/100‑1 (MQ=255)
cAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAg < 2:1128638/100‑1 (MQ=255)
gAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGa < 1:465929/100‑1 (MQ=255)
aGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGaa < 1:972191/100‑1 (MQ=255)
gtggtgAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGaaa < 1:901632/100‑1 (MQ=255)
ggtgAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAAtt > 2:768257/1‑100 (MQ=255)
gtgAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTc > 1:208360/1‑100 (MQ=255)
gAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCaa > 1:446736/1‑100 (MQ=255)
tgtCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTc < 1:152424/100‑1 (MQ=255)
gtCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCg > 1:621630/1‑100 (MQ=255)
gtCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCg > 1:451099/1‑100 (MQ=255)
ctgttCAGCAAGAATATTTTTTATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTc < 2:1170599/93‑1 (MQ=255)
tttCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAAt < 1:1104019/100‑1 (MQ=255)
tttCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAAt > 1:1063668/1‑100 (MQ=255)
taGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGt < 2:719587/99‑1 (MQ=255)
cAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGt > 2:385543/1‑100 (MQ=255)
aGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCACAGTAACTTTCGCGAATGTCGGATTAGAAATTCAAACTTCGATAATTGta > 1:719592/1‑99 (MQ=255)
gCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTa < 1:1197924/100‑1 (MQ=255)
gCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTa < 1:446640/100‑1 (MQ=255)
cAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTAt > 2:488313/1‑100 (MQ=255)
aaaaaTATTCTTGATACATTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTa < 2:1186575/98‑1 (MQ=255)
aaTATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCttt > 1:520045/1‑100 (MQ=255)
atatTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAATTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTa < 1:1279588/100‑1 (MQ=255)
tatTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTAc < 2:849154/100‑1 (MQ=255)
ttaTACAGTTGACTTCTCGCAGAGTACAATTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCACACTTCGATAATTGTTATCTTTACGCTTCg > 2:458444/3‑100 (MQ=255)
tGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCg < 2:826224/100‑1 (MQ=255)
cAGTTGACTTCTCTCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACtt > 1:882146/1‑100 (MQ=255)
gACTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACca > 2:956636/1‑100 (MQ=255)
aCTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGCTTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACcag > 1:1105347/1‑100 (MQ=255)
aCTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACcag < 1:768262/100‑1 (MQ=255)
cTTCTCGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACcaga > 2:573749/1‑100 (MQ=255)
tctcGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACcagagc > 2:641006/1‑100 (MQ=255)
tctcGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACcagagc < 2:718241/100‑1 (MQ=255)
cGCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACcagagcaga > 1:1169758/1‑100 (MQ=255)
gCAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACcagagcagag > 1:860462/1‑100 (MQ=255)
cAGAGTCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGt > 1:1160028/1‑100 (MQ=255)
tCAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTtctg < 1:385547/100‑1 (MQ=255)
cAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTtctgt > 2:1047035/1‑100 (MQ=255)
cAACTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTtctgt > 1:236892/1‑100 (MQ=255)
aCTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTtctgtct < 2:791753/100‑1 (MQ=255)
cTTGGTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTtctgtctg < 1:381808/100‑1 (MQ=255)
gTCATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCaa > 1:554768/1‑100 (MQ=255)
cATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCAAAg > 1:401789/1‑100 (MQ=255)
cATAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCAAAg < 1:929254/100‑1 (MQ=255)
aTAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCAAAGa > 1:1173126/1‑100 (MQ=255)
tAGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCAAAGaa > 1:777325/1‑100 (MQ=255)
aGTAACTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCAAAGaaa > 1:136034/1‑100 (MQ=255)
|
GTGATTTTTATCAAAGCGAGTGGTGAATGTGTCGATTTCAGCAAAAATATTCTTGATACAGTTGACTTCTCGCAGAGTCAACTTGGTCATAGTAATTTTCGCGAATGTCAGATTAGAAATTCAAACTTCGATAATTGTTATCTTTACGCTTCGCACTTCACCAGAGCAGAGTTTCTGTCTGCCAAAGAAA > NC_000913/4251192‑4251381
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
