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 F999 I1 R1
|
226 |
132.7 |
9745491 |
85.7% |
8351885 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,554,118 |
+C |
coding (367/396 nt) |
yhgKJ ← |
RNA phosphage cyclase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,554,117 | 1 | . | C | 93.8%
| 193.4
/ 7.3
| 80 | coding (368/396 nt) | yhgKJ | RNA phosphage cyclase |
| Reads supporting (aligned to +/- strand): ref base . (4/1); new base C (44/31); total (48/32) |
| Fisher's exact test for biased strand distribution p-value = 6.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTATTTTCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCG‑AGGCGGCGCCGACGGGTTATCGGTCGCCG‑CGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTGCAGCACCA > NC_000913/3554043‑3554183
|
ccTATTTTCGCCAGCAGCGGCTCCAGTACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGt‑gccg‑c < 1:4394423/76‑1 (MQ=255)
cTATTTTCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGt‑gccg‑cc < 1:1807443/76‑2 (MQ=255)
cTATTTTCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGt‑gccg‑cc < 1:4604619/76‑2 (MQ=255)
tATTTTCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGt‑gccg‑ccg < 1:2747906/76‑3 (MQ=255)
aTTTTCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGTCGGCGCCGACGGGTTATCGGt‑gccg‑ccgc > 1:3859406/1‑73 (MQ=255)
tCGCCAGCAGCGGCTCCAGCCCCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCAc < 1:4099206/76‑1 (MQ=255)
tCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCAc > 1:3617561/1‑76 (MQ=255)
tCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCCACGGGGTATTGGTGGCGC‑CGCTccc > 1:475139/1‑74 (MQ=255)
cGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACt < 1:2630716/76‑1 (MQ=255)
cGCCAGCAGCGGCTCCAGCACCCCGCGGAGAAAATCAGCAGGCGGCGCCCCCGGGTTATCGGTCCCCC‑CGCCCACt > 2:1718441/1‑76 (MQ=255)
cccAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACtt < 1:700046/75‑1 (MQ=255)
cagcagCGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCa > 1:2950094/1‑76 (MQ=255)
agcagcGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATAGGT‑GCCGCCGCTCACTTCaa > 1:4850711/1‑76 (MQ=255)
cagcGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGGCGACGGGTTATCGGT‑GCCGCCGCTCCCTTCCacc > 2:4316987/1‑75 (MQ=255)
cagcGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAaca > 1:4030622/1‑76 (MQ=255)
agcGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCCCTTCAacac > 1:2387443/1‑76 (MQ=255)
agcGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGGTATCGGGCCCCC‑CGCCCCCCTCAaaac > 2:916362/1‑76 (MQ=255)
gcGGCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACAcg < 2:3019909/76‑1 (MQ=255)
ggCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACAcgcg > 1:3458170/1‑76 (MQ=255)
gCTCCAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGa > 1:1516797/1‑76 (MQ=255)
tCCAGCACCCAGCGGATAAAATCCGCAGGCGGCGCCGACGGGGTATCGGTGCCCC‑AGCTCACTGCAACACGCCAAg > 2:3098578/1‑76 (MQ=255)
cccAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAg < 1:3094290/75‑1 (MQ=255)
cAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGt < 1:598005/76‑1 (MQ=255)
cAGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGt < 1:247615/76‑1 (MQ=255)
aGCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTc > 1:3708937/1‑76 (MQ=255)
ggaCCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTcc < 2:2430666/74‑1 (MQ=255)
gCACCCGGCGGATAAAATCCGCGGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTcc < 1:4245024/76‑1 (MQ=255)
gCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCCACACGCGAAGGTcc > 1:1152671/1‑76 (MQ=255)
gCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTcc < 1:2674116/76‑1 (MQ=255)
gCACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTcc < 2:2585498/76‑1 (MQ=255)
cACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCa > 2:2679099/1‑76 (MQ=255)
cACCCGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGGCCa > 2:3695984/1‑76 (MQ=255)
cccGGCGGATAGAATCCGCGGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATc < 2:1149211/76‑1 (MQ=255)
cccGGCGGATAAAATCCGCGGGCGGCACCGAGGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATc < 1:601504/76‑1 (MQ=255)
cccGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATc < 2:1255810/76‑1 (MQ=255)
cccGGCGGATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATc < 1:4690778/76‑1 (MQ=255)
ggcggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGc > 1:706242/1‑76 (MQ=255)
gcggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCa > 1:1905830/1‑76 (MQ=255)
gcggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCa > 1:3994208/1‑76 (MQ=255)
gcggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCa > 1:3364904/1‑76 (MQ=255)
cggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATAGGCaa > 1:1313397/1‑76 (MQ=255)
cggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCACCGGCaa > 2:3412423/1‑76 (MQ=255)
ggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCaaa < 1:2835090/76‑1 (MQ=255)
ggATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCaaa > 1:4496734/1‑76 (MQ=255)
gATAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAAc > 2:1637919/1‑76 (MQ=255)
aTAAAATCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCCCTTCAACACGCGAAGGTCCATCGGCACAcc > 1:4762489/1‑76 (MQ=255)
aTAAAACCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAAcc < 2:4287181/76‑1 (MQ=255)
aaaaTCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACcac > 2:4113008/1‑76 (MQ=255)
aaaaTCCGCAGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGCCCATCGGCAAACcac > 2:1161618/1‑76 (MQ=255)
ctcaGGCGGCGCCGACTGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGcgcg < 1:280840/73‑1 (MQ=255)
cgcaGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGcgcg < 1:1550361/73‑1 (MQ=255)
gcaGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCgg > 1:2969177/3‑76 (MQ=255)
aGGCGGCGCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGgc > 2:1694704/1‑76 (MQ=255)
gggcgCCGGCGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGgcagc < 2:3729118/75‑1 (MQ=255)
cggcgCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCCTCGGCAAACCACAGCGCGGgccgc > 2:1586912/1‑76 (MQ=255)
ggcgCCGGCGGGTTATCGG‑GGCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGgcagca < 2:4672949/76‑1 (MQ=255)
ggcgCCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCCTCGGCAAACCACAGCGCGGccagcc > 2:1534720/1‑75 (MQ=255)
cgcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCAcc < 2:1516796/76‑1 (MQ=255)
cgcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCAcc < 1:2560613/76‑1 (MQ=255)
cgcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCAcc < 1:2523800/76‑1 (MQ=255)
gcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCCGCAccc > 2:3842954/1‑75 (MQ=255)
gcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCg > 1:2330399/1‑76 (MQ=255)
gcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCg > 2:1851063/1‑76 (MQ=255)
gcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCg > 1:176520/1‑76 (MQ=255)
gcCGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCg > 1:2430744/1‑76 (MQ=255)
ccGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCCCCGt > 2:2603160/1‑76 (MQ=255)
ccGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGt > 2:2617655/1‑76 (MQ=255)
ccGACGGGTGATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGt < 2:939794/76‑1 (MQ=255)
cGACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGCGCCGCACCGtt > 2:3250702/1‑76 (MQ=255)
gACGGGTTATCGGT‑GCCGCCGCTCATTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGttt > 1:3957235/1‑76 (MQ=255)
gACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGttt < 1:882252/76‑1 (MQ=255)
gACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGttt > 1:2486988/1‑76 (MQ=255)
gACGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGttt < 2:1988943/76‑1 (MQ=255)
gACGGGTTATCGGT‑GCCGCCGATCACTTCAACACGCGAAGGACCATAGGCAAACCACAGCGACGGCAGCACCGatt > 1:3015646/1‑76 (MQ=255)
ggggTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTgc < 2:1463133/75‑1 (MQ=255)
cGGGTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTgc > 1:726229/1‑76 (MQ=255)
gggTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTgca < 1:663137/76‑1 (MQ=255)
ggTTATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGCTTgcag > 2:3072149/1‑76 (MQ=255)
gTTATCGGT‑GCCGCCGCTCACTTCAACACGCGGAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTgcagc < 1:2718866/76‑1 (MQ=255)
ttATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTgcagca < 2:1684167/76‑1 (MQ=255)
ttATCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTgcagca > 1:1055129/1‑76 (MQ=255)
ttATCGGT‑GCCGCCGATCACTTCCACACGCGAAGGTCCATCGGGAAACCACAGCGCGGGCAGCACCGTTTgcagca > 1:3674348/1‑76 (MQ=255)
aTCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTGCAGCAcc > 2:2243152/1‑76 (MQ=255)
aTCGGT‑GCCGCCGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTGCAGCAcc > 2:4371008/1‑76 (MQ=255)
tCGGTGCCCC‑CGCGCACCTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTGCAGCACCa < 2:91153/76‑1 (MQ=255)
|
CCTATTTTCGCCAGCAGCGGCTCCAGCACCCGGCGGATAAAATCCG‑AGGCGGCGCCGACGGGTTATCGGTCGCCG‑CGCTCACTTCAACACGCGAAGGTCCATCGGCAAACCACAGCGCGGGCAGCACCGTTTGCAGCACCA > NC_000913/3554043‑3554183
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
