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 |
|
A5 F1 I1 R1
|
19 |
34.1 |
2156969 |
96.4% |
2079318 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,928,928 |
C→T |
R238C (CGC→TGC) |
rho → |
transcription termination factor Rho |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,928,928 | 0 | C | T | 96.8%
| 110.2
/ NA
| 31 | R238C (CGC→TGC) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (16/14); total (16/15) |
| Fisher's exact test for biased strand distribution p-value = 4.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGAAGTAACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGAC > REL606/3928858‑3928993
|
agaagTAACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCAGCATCTTGCCAc < 2:603120/76‑1 (MQ=255)
agTAACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGACACCGCATCTTGCCACGtt > 2:815645/1‑76 (MQ=255)
gTAACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTc > 1:175450/1‑76 (MQ=255)
gTAACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTc > 2:55033/1‑76 (MQ=255)
gTAACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTGTGACGAACCCGCATCTTGCCACGTTc < 1:963180/76‑1 (MQ=255)
gagaTGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTg < 2:5203/76‑1 (MQ=255)
aTGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCgg > 1:82938/1‑76 (MQ=255)
cAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGaaa < 2:680167/76‑1 (MQ=255)
aGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAAt < 1:383106/76‑1 (MQ=255)
cGTCTGGTAAAAGGTGAATTTCTTGCTTCTACCTTTGACGAACACGCATCTTGCCACGTTCAGGTTGCGGAAATgg > 2:976700/1‑76 (MQ=255)
tCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTg < 2:345438/76‑1 (MQ=255)
cTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAANGGTGa > 2:875727/1‑76 (MQ=255)
cTGGCAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGa > 2:221183/1‑76 (MQ=255)
tAAAAGGTGAAGTTCTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCga < 2:676256/76‑1 (MQ=255)
aaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCgaga > 1:303696/1‑76 (MQ=255)
aaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGCTTGCGGAAATGGTGATCgaga > 2:905379/1‑76 (MQ=255)
aaaCGTGAAGGTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGNTCAGGTTACGGAAATGGTGATCgcga < 2:937429/76‑1 (MQ=255)
aaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGaa > 2:237314/1‑76 (MQ=255)
aGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAg < 1:197635/76‑1 (MQ=255)
tggaGTTGTTGCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGcc > 2:631720/4‑76 (MQ=255)
aGTTGTTGCTTCTACCCTTGACGAACCCGCATCGTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCaaa < 2:724902/76‑1 (MQ=255)
ttgttgCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACg > 1:727513/1‑76 (MQ=255)
ttgttgCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACg < 2:568218/76‑1 (MQ=255)
ttgCTTCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCt < 1:1072461/76‑1 (MQ=255)
tCTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTg > 2:390899/1‑76 (MQ=255)
cTACCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAACAGCCTGGTTGa > 1:204982/1‑76 (MQ=255)
aCCTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGc < 1:429818/76‑1 (MQ=255)
ccTTTGACGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGca > 2:1058557/1‑76 (MQ=255)
tttGACGAACCCACATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGcaca > 1:619914/1‑76 (MQ=255)
cGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaa > 1:552230/1‑76 (MQ=255)
cGAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaa < 2:750836/76‑1 (MQ=255)
gAACCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaag < 1:586922/76‑1 (MQ=255)
aCCCGCATCTTGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGTCAAACGCCTGGTTGAGCACAAGAAAGAc > 2:492528/1‑76 (MQ=255)
|
AGAAGTAACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGAC > REL606/3928858‑3928993
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
