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 |
|
A32 F1 I1 R1
|
13 |
41.3 |
2638873 |
95.5% |
2520123 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,163,094 |
G→T |
G747C (GGT→TGT) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,163,094 | 0 | G | T | 95.6%
| 154.5
/ ‑3.6
| 45 | G747C (GGT→TGT) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base G (0/2); new base T (26/17); total (26/19) |
| Fisher's exact test for biased strand distribution p-value = 1.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
CGTTCAGTACGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCAGGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCGTGTG > REL606/4163024‑4163166
|
cGTTCAGTACGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATc > 1:606289/1‑76 (MQ=255)
gTTCAGTACGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCg < 2:820960/76‑1 (MQ=255)
gTTCAGTACGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCg < 1:356227/76‑1 (MQ=255)
cAGTACGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACa > 1:400042/1‑76 (MQ=255)
gTACGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATc < 1:568814/76‑1 (MQ=255)
aCGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTa > 1:201504/1‑76 (MQ=255)
tGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACaa > 2:1287911/1‑76 (MQ=255)
ggATGCTTGCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAAc > 1:604952/1‑76 (MQ=255)
ggATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAAc < 2:103438/76‑1 (MQ=255)
gATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAAcc < 2:313663/76‑1 (MQ=255)
aTGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCt < 2:362108/76‑1 (MQ=255)
tGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTg < 1:306155/76‑1 (MQ=255)
gCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGa > 1:1212487/1‑76 (MQ=255)
ttCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTANAACCTGAcc < 1:34921/76‑1 (MQ=255)
ttCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTANAACCTGAcc < 1:33180/76‑1 (MQ=255)
ttCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGAcc > 2:1174643/1‑76 (MQ=255)
cGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCaaaa > 1:584638/1‑75 (MQ=255)
cGTTATCATAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACAcc > 1:1047999/1‑76 (MQ=255)
cGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACAcc > 1:752611/1‑76 (MQ=255)
ttATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCg > 2:119552/1‑76 (MQ=255)
aTCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGtt > 2:615164/1‑76 (MQ=255)
gTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAAcc < 2:272146/76‑1 (MQ=255)
gTTAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAAcc > 1:259432/1‑76 (MQ=255)
tAACGAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAg > 1:1281360/1‑76 (MQ=255)
cGAAGACGAAATGTATCCGGGTGAAGCATGTATGGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAac > 2:1131781/1‑76 (MQ=255)
gAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAaca > 2:989749/1‑76 (MQ=255)
gAAGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAaca > 2:537540/1‑76 (MQ=255)
aGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACAcc > 2:81618/1‑76 (MQ=255)
aGACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACAcc < 2:263933/76‑1 (MQ=255)
gACGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCt < 2:1212486/76‑1 (MQ=255)
aCGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTg > 1:687000/1‑76 (MQ=255)
cGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGt < 1:133843/76‑1 (MQ=255)
cGAGATGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGt < 1:310868/76‑1 (MQ=255)
gagaTGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTa > 1:192364/1‑76 (MQ=255)
gaTGTATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATc > 1:656843/1‑76 (MQ=255)
gaTGCAGCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATATACCCGTTCTAACCAGAACACCTGTATc < 1:1294227/76‑1 (MQ=255)
aTGTATCCGGGTGAAGCATGTATCGACCTCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCAGAATCa > 1:1304218/1‑76 (MQ=255)
tATCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAAcc > 1:423208/1‑76 (MQ=255)
tCCGGGTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAg < 2:162921/76‑1 (MQ=255)
ggTGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGc > 1:109763/1‑76 (MQ=255)
tGAAGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCg < 1:912924/76‑1 (MQ=255)
aaGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCgtg > 1:765802/1‑76 (MQ=255)
aaGCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCgtg > 1:765812/1‑76 (MQ=255)
aaGCAGGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCgtg < 2:235119/76‑1 (MQ=255)
gCATGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCgtgtg > 1:958645/1‑76 (MQ=255)
gCAGGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCgggtg < 2:709531/76‑1 (MQ=255)
|
CGTTCAGTACGTGGATGCTTCCCGTATCGTTATCAAAGTTAACGAAGACGAGATGTATCCGGGTGAAGCAGGTATCGACATCTACAACCTGACCAAATACACCCGTTCTAACCAGAACACCTGTATCAACCAGATGCCGTGTG > REL606/4163024‑4163166
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
