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 |
|
A7 F1 I1 R1
|
20 |
54.5 |
3547384 |
95.1% |
3373562 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,163,698 |
T→G |
I948S (ATC→AGC) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,163,698 | 0 | T | G | 98.2%
| 218.1
/ ‑7.3
| 54 | I948S (ATC→AGC) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base G (33/20); total (33/21) |
| Fisher's exact test for biased strand distribution p-value = 3.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTATCCGGTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTT > REL606/4163625‑4163770
|
gtATCCGGTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCg < 1:62693/76‑1 (MQ=255)
gtATCCGGTACGGTTATCGACGATCNGCTCTTTACTAGCGATGGCGTNGAAGAAGACAAACGTGCGCTGGAAAGCg < 1:258561/76‑1 (MQ=255)
tATCCGGTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCga > 2:1359797/1‑76 (MQ=255)
tATCCGGTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCga > 2:1640469/1‑76 (MQ=255)
tATCCGGTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCga > 2:791470/1‑76 (MQ=255)
ccGGTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAANAGACAAACGTGCGCTGGAAAGCgaaga < 2:231/76‑1 (MQ=255)
gTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAAt > 2:984242/1‑76 (MQ=255)
aCGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGc > 2:440743/1‑76 (MQ=255)
cGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCa > 2:1007830/1‑76 (MQ=255)
ggTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAg > 1:888279/1‑76 (MQ=255)
ttATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCt < 1:907600/76‑1 (MQ=255)
tATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTc > 1:1209111/1‑76 (MQ=255)
aTCGACGTTCAGGTCTTTACTCGCGATCGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCa > 1:1564537/1‑76 (MQ=255)
tCGACGTTCAGGTCTTTACTCGCGATGGCGTAGCAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCaa > 1:1619677/1‑76 (MQ=255)
aCGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGACGAAATGCAGCTCAAACa < 1:1758077/76‑1 (MQ=255)
aCGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACa > 1:240479/1‑76 (MQ=255)
aCGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACa < 1:1290176/76‑1 (MQ=255)
ttCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGc < 1:802086/76‑1 (MQ=255)
tCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCg > 1:825673/1‑76 (MQ=255)
cAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCgatga > 2:143016/1‑56 (MQ=255)
cAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCgaaga < 1:143016/56‑1 (MQ=255)
cAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCga > 2:1367635/1‑76 (MQ=255)
cAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCga > 2:480928/1‑76 (MQ=255)
ggNCTTTAATCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCgnag > 2:1442299/1‑76 (MQ=255)
gTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCgaaga < 2:1483960/76‑1 (MQ=255)
cTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCTCTCGAAATCGANGAAATGCAGCTCAAACAGGCGaagaaa < 1:1543892/76‑1 (MQ=255)
cTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGCAAAGCGAAGAAATGTAGCTCAAACAGGCGaagaaa > 2:1403536/1‑76 (MQ=255)
ttACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGaagaaaga > 1:114927/1‑76 (MQ=255)
ttACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGaagaaaga > 2:1543697/1‑76 (MQ=255)
aCTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGAcc > 2:1599401/1‑76 (MQ=255)
tCGCGATGGCGTAGAAAAAGACAACCGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTg < 2:654944/76‑1 (MQ=255)
tCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAATAAATGCAGCTCAAACAGGCGAAGAAAGACCTg < 2:1190164/76‑1 (MQ=255)
gcgATGGCGTAGAAAAAGTCAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTc < 1:534339/76‑1 (MQ=255)
gATGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTg < 2:100427/76‑1 (MQ=255)
tGGCGTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTgaa < 2:1256401/76‑1 (MQ=255)
gTAGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAAc > 1:446338/1‑76 (MQ=255)
aGAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTg > 2:204138/1‑76 (MQ=255)
gAAAAAGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACTTGTCTGAAGAACTGc < 2:154345/76‑1 (MQ=255)
aaaaGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAg > 2:1315415/1‑76 (MQ=255)
aaaGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGa > 1:1027453/1‑76 (MQ=255)
aaaGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGa > 1:1156637/1‑76 (MQ=255)
aaaGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGa > 2:704646/1‑76 (MQ=255)
aaGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGAt < 2:1533226/76‑1 (MQ=255)
aGACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATc < 1:1407182/76‑1 (MQ=255)
gACAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATcc > 1:1244627/1‑76 (MQ=255)
cAAACGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTc > 2:412238/1‑76 (MQ=255)
aaaCGTGCGCTGGACAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGCAGAACTTCAGATCCTCg < 1:140184/76‑1 (MQ=255)
aaaCGTGCGCTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCg > 2:544844/1‑76 (MQ=255)
aCGTGCGCTTGAAAGCGAAGNAATGCAGCTAAAACANGCGAAGAAAGACCCGACTGAAGAACTGCAGATCCTCGaa < 2:1755808/76‑1 (MQ=255)
tGCGCTGGAAAGCGAAGAAAAGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCg > 1:937527/1‑76 (MQ=255)
cgcTGGAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAAATGCAGATCCTCGAAGCggg > 2:701302/1‑76 (MQ=255)
tGGAAAGCGAAGAAATGCAGCTCAAACAGGTGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCt < 2:1543858/76‑1 (MQ=255)
ggAAAGCGTAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTg > 2:56799/1‑76 (MQ=255)
ggAAAGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTg > 2:472656/1‑76 (MQ=255)
aaaGCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGtt > 2:867821/1‑76 (MQ=255)
|
GTATCCGGTACGGTTATCGACGTTCAGGTCTTTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTT > REL606/4163625‑4163770
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
